diagnostics_scripts/get_read_statistics.ipynb

{
 "cells": [
  {
   "cell_type": "markdown",
   "id": "02a52962-5282-4c88-96ee-171cecee23b8",
   "metadata": {},
   "source": [
    "# Pipeline to retrieve DiMSum merge statistics"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "8b87cb41-f59a-4cbd-9c06-6b7dfcd68fda",
   "metadata": {},
   "source": [
    "Note: the first steps are ran on the server to generate the merge_stats.csv file."
   ]
  },
  {
   "cell_type": "markdown",
   "id": "56be85c4-cdb0-4bc1-b1b8-16a48088d4ac",
   "metadata": {},
   "source": [
    "## Import packages"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "26c7d80a-99d7-4e17-94fd-0d6baad140f3",
   "metadata": {
    "tags": []
   },
   "outputs": [],
   "source": [
    "import glob\n",
    "import pandas as pd\n",
    "import seaborn as sns\n",
    "import matplotlib.pyplot as plt\n",
    "%matplotlib inline\n",
    "plt.rcParams['svg.fonttype'] = 'none'"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "735a7a0c-5fef-429e-b022-e8f118d6b2b8",
   "metadata": {},
   "source": [
    "## Initialize variables"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "b64bf106-83c1-44da-a420-0523ce23a772",
   "metadata": {
    "tags": []
   },
   "outputs": [],
   "source": [
    "# Paths on the server\n",
    "dimsum_output_folder = '/home/rodur28/novaseq_run2_py/'\n",
    "\n",
    "# Relative paths in the repo\n",
    "data_path = '../data/'\n",
    "readinfo_path = '../data/20220929_NovaSeq_DMS_pools_v2.xlsx'\n",
    "diagnostics_graph_outpath = '../diagnostics_graphs/'"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "0dafcfa8-aa13-4fcf-9cf6-65118321eac4",
   "metadata": {
    "jp-MarkdownHeadingCollapsed": true,
    "tags": []
   },
   "source": [
    "# Script to run on server"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "3bf7d7cd-beb9-43dc-8cac-b9dbc33e2ed1",
   "metadata": {
    "jp-MarkdownHeadingCollapsed": true,
    "tags": []
   },
   "source": [
    "## Get statistics"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "b958718c-ae74-4859-a2c0-a7be70b86bc7",
   "metadata": {},
   "outputs": [
    {
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       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
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       "      <th>experiment</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>9573693</td>\n",
       "      <td>8963421</td>\n",
       "      <td>0</td>\n",
       "      <td>3522</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>83938</td>\n",
       "      <td>522812</td>\n",
       "      <td>input1</td>\n",
       "      <td>split1</td>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>9412960</td>\n",
       "      <td>8688258</td>\n",
       "      <td>0</td>\n",
       "      <td>4468</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>90349</td>\n",
       "      <td>629885</td>\n",
       "      <td>input1</td>\n",
       "      <td>split2</td>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>4054787</td>\n",
       "      <td>3752506</td>\n",
       "      <td>0</td>\n",
       "      <td>1970</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>37293</td>\n",
       "      <td>263018</td>\n",
       "      <td>input1</td>\n",
       "      <td>split3</td>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>9616847</td>\n",
       "      <td>9022341</td>\n",
       "      <td>0</td>\n",
       "      <td>2790</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73399</td>\n",
       "      <td>518317</td>\n",
       "      <td>input2</td>\n",
       "      <td>split1</td>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>9416858</td>\n",
       "      <td>8705619</td>\n",
       "      <td>0</td>\n",
       "      <td>3676</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>80242</td>\n",
       "      <td>627321</td>\n",
       "      <td>input2</td>\n",
       "      <td>split2</td>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>84</th>\n",
       "      <td>3825199</td>\n",
       "      <td>3628151</td>\n",
       "      <td>0</td>\n",
       "      <td>1824</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>21045</td>\n",
       "      <td>174179</td>\n",
       "      <td>output3none1</td>\n",
       "      <td>split2</td>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>85</th>\n",
       "      <td>9944720</td>\n",
       "      <td>9445525</td>\n",
       "      <td>0</td>\n",
       "      <td>3911</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>50429</td>\n",
       "      <td>444855</td>\n",
       "      <td>output3none2</td>\n",
       "      <td>split1</td>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>86</th>\n",
       "      <td>2623112</td>\n",
       "      <td>2490035</td>\n",
       "      <td>0</td>\n",
       "      <td>1028</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>14075</td>\n",
       "      <td>117974</td>\n",
       "      <td>output3none2</td>\n",
       "      <td>split2</td>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>87</th>\n",
       "      <td>9943413</td>\n",
       "      <td>9422127</td>\n",
       "      <td>0</td>\n",
       "      <td>4493</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>53539</td>\n",
       "      <td>463254</td>\n",
       "      <td>output3none3</td>\n",
       "      <td>split1</td>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>88</th>\n",
       "      <td>3363702</td>\n",
       "      <td>3183165</td>\n",
       "      <td>0</td>\n",
       "      <td>1697</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>19562</td>\n",
       "      <td>159278</td>\n",
       "      <td>output3none3</td>\n",
       "      <td>split2</td>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>89 rows × 11 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "      Pairs   Merged  Too short  No alignment found  Too many diffs  \\\n",
       "0   9573693  8963421          0                3522               0   \n",
       "1   9412960  8688258          0                4468               0   \n",
       "2   4054787  3752506          0                1970               0   \n",
       "3   9616847  9022341          0                2790               0   \n",
       "4   9416858  8705619          0                3676               0   \n",
       "..      ...      ...        ...                 ...             ...   \n",
       "84  3825199  3628151          0                1824               0   \n",
       "85  9944720  9445525          0                3911               0   \n",
       "86  2623112  2490035          0                1028               0   \n",
       "87  9943413  9422127          0                4493               0   \n",
       "88  3363702  3183165          0                1697               0   \n",
       "\n",
       "    Overlap too short  Exp.errs. too high  Min Q too low   sample_name  \\\n",
       "0                   0               83938         522812        input1   \n",
       "1                   0               90349         629885        input1   \n",
       "2                   0               37293         263018        input1   \n",
       "3                   0               73399         518317        input2   \n",
       "4                   0               80242         627321        input2   \n",
       "..                ...                 ...            ...           ...   \n",
       "84                  0               21045         174179  output3none1   \n",
       "85                  0               50429         444855  output3none2   \n",
       "86                  0               14075         117974  output3none2   \n",
       "87                  0               53539         463254  output3none3   \n",
       "88                  0               19562         159278  output3none3   \n",
       "\n",
       "     split                            experiment  \n",
       "0   split1  BY4741_FKS1-HS1_double_anidulafungin  \n",
       "1   split2  BY4741_FKS1-HS1_double_anidulafungin  \n",
       "2   split3  BY4741_FKS1-HS1_double_anidulafungin  \n",
       "3   split1  BY4741_FKS1-HS1_double_anidulafungin  \n",
       "4   split2  BY4741_FKS1-HS1_double_anidulafungin  \n",
       "..     ...                                   ...  \n",
       "84  split2            R1158_FKS2-HS2_double_none  \n",
       "85  split1            R1158_FKS2-HS2_double_none  \n",
       "86  split2            R1158_FKS2-HS2_double_none  \n",
       "87  split1            R1158_FKS2-HS2_double_none  \n",
       "88  split2            R1158_FKS2-HS2_double_none  \n",
       "\n",
       "[89 rows x 11 columns]"
      ]
     },
     "execution_count": 3,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "list_df = []\n",
    "for f in glob.glob(dimsum_output_folder+'/*/'):\n",
    "    df = pd.DataFrame()\n",
    "    experiment = f.split('/')[-2]\n",
    "    for i, r in enumerate(glob.glob(f+'/tmp/3_align/*report')):\n",
    "        sample_name = r.split('/')[-1].split('_')[0]\n",
    "        split_nb = r.split('/')[-1].split('_')[-1].split('.')[0]\n",
    "        with open(r, 'r') as report:\n",
    "            linestats = report.readlines()[8:16]\n",
    "        report.close()\n",
    "        lstats = [l.split() for l in linestats]\n",
    "        largs = [(' '.join(x[1:]), int(x[0])) for x in lstats]\n",
    "        largs_dict = dict(largs)\n",
    "        largs_dict['sample_name'] = sample_name\n",
    "        largs_dict['split'] = split_nb\n",
    "        entry = pd.DataFrame(largs_dict, index=[i])\n",
    "        entry['experiment'] = experiment\n",
    "        list_df.append(entry)\n",
    "\n",
    "fulldf = pd.concat(list_df)\n",
    "dfsort = fulldf.sort_values(by=['experiment', 'sample_name', 'split']).reset_index(drop=True)\n",
    "dfsort"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "4cdbbe90-1819-4ca5-92fe-12915622620a",
   "metadata": {
    "jp-MarkdownHeadingCollapsed": true,
    "tags": []
   },
   "source": [
    "## Aggregate split chunks"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "1cc79b95-6ce1-4460-9b35-dbbef0854d91",
   "metadata": {},
   "outputs": [
    {
     "data": {
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       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>experiment</th>\n",
       "      <th>sample_name</th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
       "      <th>Exp.errs. too high</th>\n",
       "      <th>Min Q too low</th>\n",
       "      <th>split</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input1</td>\n",
       "      <td>23041440</td>\n",
       "      <td>21404185</td>\n",
       "      <td>0</td>\n",
       "      <td>9960</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>211580</td>\n",
       "      <td>1415715</td>\n",
       "      <td>split2split3split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input2</td>\n",
       "      <td>22226829</td>\n",
       "      <td>20693608</td>\n",
       "      <td>0</td>\n",
       "      <td>7695</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>179215</td>\n",
       "      <td>1346311</td>\n",
       "      <td>split3split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input3</td>\n",
       "      <td>27030452</td>\n",
       "      <td>25320101</td>\n",
       "      <td>0</td>\n",
       "      <td>11450</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>233155</td>\n",
       "      <td>1465746</td>\n",
       "      <td>split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin1</td>\n",
       "      <td>20684235</td>\n",
       "      <td>19027302</td>\n",
       "      <td>0</td>\n",
       "      <td>9965</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>201515</td>\n",
       "      <td>1445453</td>\n",
       "      <td>split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin2</td>\n",
       "      <td>25019616</td>\n",
       "      <td>23101283</td>\n",
       "      <td>0</td>\n",
       "      <td>15239</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>264335</td>\n",
       "      <td>1638759</td>\n",
       "      <td>split3split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin3</td>\n",
       "      <td>21503909</td>\n",
       "      <td>19491546</td>\n",
       "      <td>0</td>\n",
       "      <td>13029</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>240584</td>\n",
       "      <td>1758750</td>\n",
       "      <td>split3split2split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output2anidulafungin1</td>\n",
       "      <td>20684235</td>\n",
       "      <td>19027302</td>\n",
       "      <td>0</td>\n",
       "      <td>9965</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>201515</td>\n",
       "      <td>1445453</td>\n",
       "      <td>split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output2anidulafungin2</td>\n",
       "      <td>25019616</td>\n",
       "      <td>23101283</td>\n",
       "      <td>0</td>\n",
       "      <td>15239</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>264335</td>\n",
       "      <td>1638759</td>\n",
       "      <td>split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output2anidulafungin3</td>\n",
       "      <td>21503909</td>\n",
       "      <td>19491546</td>\n",
       "      <td>0</td>\n",
       "      <td>13029</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>240584</td>\n",
       "      <td>1758750</td>\n",
       "      <td>split3split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output3anidulafungin1</td>\n",
       "      <td>20684235</td>\n",
       "      <td>19027302</td>\n",
       "      <td>0</td>\n",
       "      <td>9965</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>201515</td>\n",
       "      <td>1445453</td>\n",
       "      <td>split1split2split3</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output3anidulafungin2</td>\n",
       "      <td>25019616</td>\n",
       "      <td>23101283</td>\n",
       "      <td>0</td>\n",
       "      <td>15239</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>264335</td>\n",
       "      <td>1638759</td>\n",
       "      <td>split1split2split3</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output3anidulafungin3</td>\n",
       "      <td>21503909</td>\n",
       "      <td>19491546</td>\n",
       "      <td>0</td>\n",
       "      <td>13029</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>240584</td>\n",
       "      <td>1758750</td>\n",
       "      <td>split3split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>input1</td>\n",
       "      <td>23041440</td>\n",
       "      <td>21404185</td>\n",
       "      <td>0</td>\n",
       "      <td>9960</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>211580</td>\n",
       "      <td>1415715</td>\n",
       "      <td>split2split3split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>13</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>input2</td>\n",
       "      <td>22226829</td>\n",
       "      <td>20693608</td>\n",
       "      <td>0</td>\n",
       "      <td>7695</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>179215</td>\n",
       "      <td>1346311</td>\n",
       "      <td>split3split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>14</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>input3</td>\n",
       "      <td>27030452</td>\n",
       "      <td>25320101</td>\n",
       "      <td>0</td>\n",
       "      <td>11450</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>233155</td>\n",
       "      <td>1465746</td>\n",
       "      <td>split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>15</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output1caspofungin1</td>\n",
       "      <td>8957600</td>\n",
       "      <td>8216839</td>\n",
       "      <td>0</td>\n",
       "      <td>3301</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>76127</td>\n",
       "      <td>661333</td>\n",
       "      <td>split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>16</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output1caspofungin2</td>\n",
       "      <td>16245891</td>\n",
       "      <td>15122667</td>\n",
       "      <td>0</td>\n",
       "      <td>4293</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>108585</td>\n",
       "      <td>1010346</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>17</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output1caspofungin3</td>\n",
       "      <td>31061146</td>\n",
       "      <td>28601558</td>\n",
       "      <td>0</td>\n",
       "      <td>18831</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>324358</td>\n",
       "      <td>2116399</td>\n",
       "      <td>split4split3split2split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>18</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output2caspofungin1</td>\n",
       "      <td>8957600</td>\n",
       "      <td>8216839</td>\n",
       "      <td>0</td>\n",
       "      <td>3301</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>76127</td>\n",
       "      <td>661333</td>\n",
       "      <td>split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>19</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output2caspofungin2</td>\n",
       "      <td>16245891</td>\n",
       "      <td>15122667</td>\n",
       "      <td>0</td>\n",
       "      <td>4293</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>108585</td>\n",
       "      <td>1010346</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>20</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output2caspofungin3</td>\n",
       "      <td>31061146</td>\n",
       "      <td>28601558</td>\n",
       "      <td>0</td>\n",
       "      <td>18831</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>324358</td>\n",
       "      <td>2116399</td>\n",
       "      <td>split4split1split3split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>21</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output3caspofungin1</td>\n",
       "      <td>8957600</td>\n",
       "      <td>8216839</td>\n",
       "      <td>0</td>\n",
       "      <td>3301</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>76127</td>\n",
       "      <td>661333</td>\n",
       "      <td>split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>22</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output3caspofungin2</td>\n",
       "      <td>16245891</td>\n",
       "      <td>15122667</td>\n",
       "      <td>0</td>\n",
       "      <td>4293</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>108585</td>\n",
       "      <td>1010346</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>23</th>\n",
       "      <td>BY4741_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output3caspofungin3</td>\n",
       "      <td>31061146</td>\n",
       "      <td>28601558</td>\n",
       "      <td>0</td>\n",
       "      <td>18831</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>324358</td>\n",
       "      <td>2116399</td>\n",
       "      <td>split3split2split4split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>24</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>input1</td>\n",
       "      <td>10972919</td>\n",
       "      <td>10387835</td>\n",
       "      <td>0</td>\n",
       "      <td>4993</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>62499</td>\n",
       "      <td>517592</td>\n",
       "      <td>split2split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>25</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>input2</td>\n",
       "      <td>10710480</td>\n",
       "      <td>10156545</td>\n",
       "      <td>0</td>\n",
       "      <td>4424</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>58897</td>\n",
       "      <td>490614</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>input3</td>\n",
       "      <td>1845487</td>\n",
       "      <td>1658521</td>\n",
       "      <td>0</td>\n",
       "      <td>1310</td>\n",
       "      <td>0</td>\n",
       "      <td>1</td>\n",
       "      <td>16903</td>\n",
       "      <td>168752</td>\n",
       "      <td>split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>27</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output1none1</td>\n",
       "      <td>13769194</td>\n",
       "      <td>13060573</td>\n",
       "      <td>0</td>\n",
       "      <td>6065</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73838</td>\n",
       "      <td>628718</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>28</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output1none2</td>\n",
       "      <td>12567832</td>\n",
       "      <td>11935560</td>\n",
       "      <td>0</td>\n",
       "      <td>4939</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>64504</td>\n",
       "      <td>562829</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>29</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output1none3</td>\n",
       "      <td>13307115</td>\n",
       "      <td>12605292</td>\n",
       "      <td>0</td>\n",
       "      <td>6190</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73101</td>\n",
       "      <td>622532</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>30</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output2none1</td>\n",
       "      <td>13769194</td>\n",
       "      <td>13060573</td>\n",
       "      <td>0</td>\n",
       "      <td>6065</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73838</td>\n",
       "      <td>628718</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>31</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output2none2</td>\n",
       "      <td>12567832</td>\n",
       "      <td>11935560</td>\n",
       "      <td>0</td>\n",
       "      <td>4939</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>64504</td>\n",
       "      <td>562829</td>\n",
       "      <td>split2split1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>32</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output2none3</td>\n",
       "      <td>13307115</td>\n",
       "      <td>12605292</td>\n",
       "      <td>0</td>\n",
       "      <td>6190</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73101</td>\n",
       "      <td>622532</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>33</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output3none1</td>\n",
       "      <td>13769194</td>\n",
       "      <td>13060573</td>\n",
       "      <td>0</td>\n",
       "      <td>6065</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73838</td>\n",
       "      <td>628718</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>34</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output3none2</td>\n",
       "      <td>12567832</td>\n",
       "      <td>11935560</td>\n",
       "      <td>0</td>\n",
       "      <td>4939</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>64504</td>\n",
       "      <td>562829</td>\n",
       "      <td>split1split2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>35</th>\n",
       "      <td>R1158_FKS2-HS2_double_none</td>\n",
       "      <td>output3none3</td>\n",
       "      <td>13307115</td>\n",
       "      <td>12605292</td>\n",
       "      <td>0</td>\n",
       "      <td>6190</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>73101</td>\n",
       "      <td>622532</td>\n",
       "      <td>split2split1</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "                              experiment            sample_name     Pairs  \\\n",
       "0   BY4741_FKS1-HS1_double_anidulafungin                 input1  23041440   \n",
       "1   BY4741_FKS1-HS1_double_anidulafungin                 input2  22226829   \n",
       "2   BY4741_FKS1-HS1_double_anidulafungin                 input3  27030452   \n",
       "3   BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin1  20684235   \n",
       "4   BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin2  25019616   \n",
       "5   BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin3  21503909   \n",
       "6   BY4741_FKS1-HS1_double_anidulafungin  output2anidulafungin1  20684235   \n",
       "7   BY4741_FKS1-HS1_double_anidulafungin  output2anidulafungin2  25019616   \n",
       "8   BY4741_FKS1-HS1_double_anidulafungin  output2anidulafungin3  21503909   \n",
       "9   BY4741_FKS1-HS1_double_anidulafungin  output3anidulafungin1  20684235   \n",
       "10  BY4741_FKS1-HS1_double_anidulafungin  output3anidulafungin2  25019616   \n",
       "11  BY4741_FKS1-HS1_double_anidulafungin  output3anidulafungin3  21503909   \n",
       "12    BY4741_FKS1-HS1_double_caspofungin                 input1  23041440   \n",
       "13    BY4741_FKS1-HS1_double_caspofungin                 input2  22226829   \n",
       "14    BY4741_FKS1-HS1_double_caspofungin                 input3  27030452   \n",
       "15    BY4741_FKS1-HS1_double_caspofungin    output1caspofungin1   8957600   \n",
       "16    BY4741_FKS1-HS1_double_caspofungin    output1caspofungin2  16245891   \n",
       "17    BY4741_FKS1-HS1_double_caspofungin    output1caspofungin3  31061146   \n",
       "18    BY4741_FKS1-HS1_double_caspofungin    output2caspofungin1   8957600   \n",
       "19    BY4741_FKS1-HS1_double_caspofungin    output2caspofungin2  16245891   \n",
       "20    BY4741_FKS1-HS1_double_caspofungin    output2caspofungin3  31061146   \n",
       "21    BY4741_FKS1-HS1_double_caspofungin    output3caspofungin1   8957600   \n",
       "22    BY4741_FKS1-HS1_double_caspofungin    output3caspofungin2  16245891   \n",
       "23    BY4741_FKS1-HS1_double_caspofungin    output3caspofungin3  31061146   \n",
       "24            R1158_FKS2-HS2_double_none                 input1  10972919   \n",
       "25            R1158_FKS2-HS2_double_none                 input2  10710480   \n",
       "26            R1158_FKS2-HS2_double_none                 input3   1845487   \n",
       "27            R1158_FKS2-HS2_double_none           output1none1  13769194   \n",
       "28            R1158_FKS2-HS2_double_none           output1none2  12567832   \n",
       "29            R1158_FKS2-HS2_double_none           output1none3  13307115   \n",
       "30            R1158_FKS2-HS2_double_none           output2none1  13769194   \n",
       "31            R1158_FKS2-HS2_double_none           output2none2  12567832   \n",
       "32            R1158_FKS2-HS2_double_none           output2none3  13307115   \n",
       "33            R1158_FKS2-HS2_double_none           output3none1  13769194   \n",
       "34            R1158_FKS2-HS2_double_none           output3none2  12567832   \n",
       "35            R1158_FKS2-HS2_double_none           output3none3  13307115   \n",
       "\n",
       "      Merged  Too short  No alignment found  Too many diffs  \\\n",
       "0   21404185          0                9960               0   \n",
       "1   20693608          0                7695               0   \n",
       "2   25320101          0               11450               0   \n",
       "3   19027302          0                9965               0   \n",
       "4   23101283          0               15239               0   \n",
       "5   19491546          0               13029               0   \n",
       "6   19027302          0                9965               0   \n",
       "7   23101283          0               15239               0   \n",
       "8   19491546          0               13029               0   \n",
       "9   19027302          0                9965               0   \n",
       "10  23101283          0               15239               0   \n",
       "11  19491546          0               13029               0   \n",
       "12  21404185          0                9960               0   \n",
       "13  20693608          0                7695               0   \n",
       "14  25320101          0               11450               0   \n",
       "15   8216839          0                3301               0   \n",
       "16  15122667          0                4293               0   \n",
       "17  28601558          0               18831               0   \n",
       "18   8216839          0                3301               0   \n",
       "19  15122667          0                4293               0   \n",
       "20  28601558          0               18831               0   \n",
       "21   8216839          0                3301               0   \n",
       "22  15122667          0                4293               0   \n",
       "23  28601558          0               18831               0   \n",
       "24  10387835          0                4993               0   \n",
       "25  10156545          0                4424               0   \n",
       "26   1658521          0                1310               0   \n",
       "27  13060573          0                6065               0   \n",
       "28  11935560          0                4939               0   \n",
       "29  12605292          0                6190               0   \n",
       "30  13060573          0                6065               0   \n",
       "31  11935560          0                4939               0   \n",
       "32  12605292          0                6190               0   \n",
       "33  13060573          0                6065               0   \n",
       "34  11935560          0                4939               0   \n",
       "35  12605292          0                6190               0   \n",
       "\n",
       "    Overlap too short  Exp.errs. too high  Min Q too low  \\\n",
       "0                   0              211580        1415715   \n",
       "1                   0              179215        1346311   \n",
       "2                   0              233155        1465746   \n",
       "3                   0              201515        1445453   \n",
       "4                   0              264335        1638759   \n",
       "5                   0              240584        1758750   \n",
       "6                   0              201515        1445453   \n",
       "7                   0              264335        1638759   \n",
       "8                   0              240584        1758750   \n",
       "9                   0              201515        1445453   \n",
       "10                  0              264335        1638759   \n",
       "11                  0              240584        1758750   \n",
       "12                  0              211580        1415715   \n",
       "13                  0              179215        1346311   \n",
       "14                  0              233155        1465746   \n",
       "15                  0               76127         661333   \n",
       "16                  0              108585        1010346   \n",
       "17                  0              324358        2116399   \n",
       "18                  0               76127         661333   \n",
       "19                  0              108585        1010346   \n",
       "20                  0              324358        2116399   \n",
       "21                  0               76127         661333   \n",
       "22                  0              108585        1010346   \n",
       "23                  0              324358        2116399   \n",
       "24                  0               62499         517592   \n",
       "25                  0               58897         490614   \n",
       "26                  1               16903         168752   \n",
       "27                  0               73838         628718   \n",
       "28                  0               64504         562829   \n",
       "29                  0               73101         622532   \n",
       "30                  0               73838         628718   \n",
       "31                  0               64504         562829   \n",
       "32                  0               73101         622532   \n",
       "33                  0               73838         628718   \n",
       "34                  0               64504         562829   \n",
       "35                  0               73101         622532   \n",
       "\n",
       "                       split  \n",
       "0         split2split3split1  \n",
       "1         split3split1split2  \n",
       "2         split1split3split2  \n",
       "3         split1split3split2  \n",
       "4         split3split1split2  \n",
       "5         split3split2split1  \n",
       "6         split1split3split2  \n",
       "7         split1split3split2  \n",
       "8         split3split1split2  \n",
       "9         split1split2split3  \n",
       "10        split1split2split3  \n",
       "11        split3split1split2  \n",
       "12        split2split3split1  \n",
       "13        split3split1split2  \n",
       "14        split1split3split2  \n",
       "15                    split1  \n",
       "16              split1split2  \n",
       "17  split4split3split2split1  \n",
       "18                    split1  \n",
       "19              split1split2  \n",
       "20  split4split1split3split2  \n",
       "21                    split1  \n",
       "22              split1split2  \n",
       "23  split3split2split4split1  \n",
       "24              split2split1  \n",
       "25              split1split2  \n",
       "26                    split1  \n",
       "27              split1split2  \n",
       "28              split1split2  \n",
       "29              split1split2  \n",
       "30              split1split2  \n",
       "31              split2split1  \n",
       "32              split1split2  \n",
       "33              split1split2  \n",
       "34              split1split2  \n",
       "35              split2split1  "
      ]
     },
     "execution_count": 4,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "gby = fulldf.groupby(['experiment', 'sample_name']).agg('sum').reset_index()\n",
    "gby"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "f1dd8e01-c8f1-4790-835b-0cf59b714b3e",
   "metadata": {
    "jp-MarkdownHeadingCollapsed": true,
    "tags": []
   },
   "source": [
    "## Calculate ratios"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "16ae90ca-8069-4dc8-88f0-32f1dfd031cf",
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "\n",
      "KeyboardInterrupt\n",
      "\n"
     ]
    }
   ],
   "source": [
    "proportions = gby.loc[:, 'Pairs':].div(gby.Pairs, axis=0)\n",
    "proportions.rename(columns=lambda x: 'Ratio '+x, inplace=True)\n",
    "proportions"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "830f6970-1e18-469f-9d63-0e5b9106ce44",
   "metadata": {
    "jp-MarkdownHeadingCollapsed": true,
    "tags": []
   },
   "source": [
    "## Export dataframe"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "4401fd44-a80f-48a4-a0fc-534b837c6fc2",
   "metadata": {},
   "outputs": [],
   "source": [
    "dfexport = pd.concat([gby, proportions], axis=1)\n",
    "dfexport"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "204b4a19-3fa2-4563-a561-fefe0256e413",
   "metadata": {},
   "outputs": [],
   "source": [
    "dfexport.to_csv(dimsum_output_folder+'/merge_stats.csv')"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "62902930-b546-4f2b-a78f-686ff4609707",
   "metadata": {},
   "source": [
    "# Post-processing"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "0da5bfb6-b5af-43e1-988e-f9dfceb8da08",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>experiment</th>\n",
       "      <th>sample_name</th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
       "      <th>Exp.errs. too high</th>\n",
       "      <th>Min Q too low</th>\n",
       "      <th>Ratio Pairs</th>\n",
       "      <th>Ratio Merged</th>\n",
       "      <th>Ratio Too short</th>\n",
       "      <th>Ratio No alignment found</th>\n",
       "      <th>Ratio Too many diffs</th>\n",
       "      <th>Ratio Overlap too short</th>\n",
       "      <th>Ratio Exp.errs. too high</th>\n",
       "      <th>Ratio Min Q too low</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input1</td>\n",
       "      <td>23620097</td>\n",
       "      <td>21761450</td>\n",
       "      <td>0</td>\n",
       "      <td>33059</td>\n",
       "      <td>45</td>\n",
       "      <td>0</td>\n",
       "      <td>256325</td>\n",
       "      <td>1569218</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.921311</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001400</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.010852</td>\n",
       "      <td>0.066436</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input2</td>\n",
       "      <td>22876785</td>\n",
       "      <td>21124254</td>\n",
       "      <td>0</td>\n",
       "      <td>28005</td>\n",
       "      <td>39</td>\n",
       "      <td>0</td>\n",
       "      <td>219385</td>\n",
       "      <td>1505102</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.923393</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001224</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.009590</td>\n",
       "      <td>0.065792</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input3</td>\n",
       "      <td>27765843</td>\n",
       "      <td>25798503</td>\n",
       "      <td>0</td>\n",
       "      <td>38433</td>\n",
       "      <td>59</td>\n",
       "      <td>0</td>\n",
       "      <td>285137</td>\n",
       "      <td>1643711</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.929145</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001384</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.010269</td>\n",
       "      <td>0.059199</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin1</td>\n",
       "      <td>21408249</td>\n",
       "      <td>19499748</td>\n",
       "      <td>0</td>\n",
       "      <td>32178</td>\n",
       "      <td>30</td>\n",
       "      <td>0</td>\n",
       "      <td>248887</td>\n",
       "      <td>1627406</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.910852</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001503</td>\n",
       "      <td>0.000001</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.011626</td>\n",
       "      <td>0.076018</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin2</td>\n",
       "      <td>25780633</td>\n",
       "      <td>23584417</td>\n",
       "      <td>0</td>\n",
       "      <td>44107</td>\n",
       "      <td>54</td>\n",
       "      <td>0</td>\n",
       "      <td>320120</td>\n",
       "      <td>1831935</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.914811</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001711</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.012417</td>\n",
       "      <td>0.071059</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>674</th>\n",
       "      <td>R1158_FKS2-HS2_single_ortho_none</td>\n",
       "      <td>output2none2</td>\n",
       "      <td>186713</td>\n",
       "      <td>175835</td>\n",
       "      <td>0</td>\n",
       "      <td>261</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1205</td>\n",
       "      <td>9412</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.941739</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001398</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006454</td>\n",
       "      <td>0.050409</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>675</th>\n",
       "      <td>R1158_FKS2-HS2_single_ortho_none</td>\n",
       "      <td>output2none3</td>\n",
       "      <td>260944</td>\n",
       "      <td>246790</td>\n",
       "      <td>0</td>\n",
       "      <td>337</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1686</td>\n",
       "      <td>12131</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.945758</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001291</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006461</td>\n",
       "      <td>0.046489</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>676</th>\n",
       "      <td>R1158_FKS2-HS2_single_ortho_none</td>\n",
       "      <td>output3none1</td>\n",
       "      <td>199210</td>\n",
       "      <td>187864</td>\n",
       "      <td>0</td>\n",
       "      <td>286</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1269</td>\n",
       "      <td>9791</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.943045</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001436</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006370</td>\n",
       "      <td>0.049149</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>677</th>\n",
       "      <td>R1158_FKS2-HS2_single_ortho_none</td>\n",
       "      <td>output3none2</td>\n",
       "      <td>186713</td>\n",
       "      <td>175835</td>\n",
       "      <td>0</td>\n",
       "      <td>261</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1205</td>\n",
       "      <td>9412</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.941739</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001398</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006454</td>\n",
       "      <td>0.050409</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>678</th>\n",
       "      <td>R1158_FKS2-HS2_single_ortho_none</td>\n",
       "      <td>output3none3</td>\n",
       "      <td>260944</td>\n",
       "      <td>246790</td>\n",
       "      <td>0</td>\n",
       "      <td>337</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1686</td>\n",
       "      <td>12131</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.945758</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001291</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006461</td>\n",
       "      <td>0.046489</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>679 rows × 18 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                               experiment            sample_name     Pairs  \\\n",
       "0    BY4741_FKS1-HS1_double_anidulafungin                 input1  23620097   \n",
       "1    BY4741_FKS1-HS1_double_anidulafungin                 input2  22876785   \n",
       "2    BY4741_FKS1-HS1_double_anidulafungin                 input3  27765843   \n",
       "3    BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin1  21408249   \n",
       "4    BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin2  25780633   \n",
       "..                                    ...                    ...       ...   \n",
       "674      R1158_FKS2-HS2_single_ortho_none           output2none2    186713   \n",
       "675      R1158_FKS2-HS2_single_ortho_none           output2none3    260944   \n",
       "676      R1158_FKS2-HS2_single_ortho_none           output3none1    199210   \n",
       "677      R1158_FKS2-HS2_single_ortho_none           output3none2    186713   \n",
       "678      R1158_FKS2-HS2_single_ortho_none           output3none3    260944   \n",
       "\n",
       "       Merged  Too short  No alignment found  Too many diffs  \\\n",
       "0    21761450          0               33059              45   \n",
       "1    21124254          0               28005              39   \n",
       "2    25798503          0               38433              59   \n",
       "3    19499748          0               32178              30   \n",
       "4    23584417          0               44107              54   \n",
       "..        ...        ...                 ...             ...   \n",
       "674    175835          0                 261               0   \n",
       "675    246790          0                 337               0   \n",
       "676    187864          0                 286               0   \n",
       "677    175835          0                 261               0   \n",
       "678    246790          0                 337               0   \n",
       "\n",
       "     Overlap too short  Exp.errs. too high  Min Q too low  Ratio Pairs  \\\n",
       "0                    0              256325        1569218          1.0   \n",
       "1                    0              219385        1505102          1.0   \n",
       "2                    0              285137        1643711          1.0   \n",
       "3                    0              248887        1627406          1.0   \n",
       "4                    0              320120        1831935          1.0   \n",
       "..                 ...                 ...            ...          ...   \n",
       "674                  0                1205           9412          1.0   \n",
       "675                  0                1686          12131          1.0   \n",
       "676                  0                1269           9791          1.0   \n",
       "677                  0                1205           9412          1.0   \n",
       "678                  0                1686          12131          1.0   \n",
       "\n",
       "     Ratio Merged  Ratio Too short  Ratio No alignment found  \\\n",
       "0        0.921311              0.0                  0.001400   \n",
       "1        0.923393              0.0                  0.001224   \n",
       "2        0.929145              0.0                  0.001384   \n",
       "3        0.910852              0.0                  0.001503   \n",
       "4        0.914811              0.0                  0.001711   \n",
       "..            ...              ...                       ...   \n",
       "674      0.941739              0.0                  0.001398   \n",
       "675      0.945758              0.0                  0.001291   \n",
       "676      0.943045              0.0                  0.001436   \n",
       "677      0.941739              0.0                  0.001398   \n",
       "678      0.945758              0.0                  0.001291   \n",
       "\n",
       "     Ratio Too many diffs  Ratio Overlap too short  Ratio Exp.errs. too high  \\\n",
       "0                0.000002                      0.0                  0.010852   \n",
       "1                0.000002                      0.0                  0.009590   \n",
       "2                0.000002                      0.0                  0.010269   \n",
       "3                0.000001                      0.0                  0.011626   \n",
       "4                0.000002                      0.0                  0.012417   \n",
       "..                    ...                      ...                       ...   \n",
       "674              0.000000                      0.0                  0.006454   \n",
       "675              0.000000                      0.0                  0.006461   \n",
       "676              0.000000                      0.0                  0.006370   \n",
       "677              0.000000                      0.0                  0.006454   \n",
       "678              0.000000                      0.0                  0.006461   \n",
       "\n",
       "     Ratio Min Q too low  \n",
       "0               0.066436  \n",
       "1               0.065792  \n",
       "2               0.059199  \n",
       "3               0.076018  \n",
       "4               0.071059  \n",
       "..                   ...  \n",
       "674             0.050409  \n",
       "675             0.046489  \n",
       "676             0.049149  \n",
       "677             0.050409  \n",
       "678             0.046489  \n",
       "\n",
       "[679 rows x 18 columns]"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport = pd.read_csv(f'{data_path}/merge_stats.csv', index_col=0)\n",
    "dfimport"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "628e89e3-e73d-4b73-bd13-5aae1b899ea2",
   "metadata": {
    "tags": []
   },
   "outputs": [],
   "source": [
    "dfimport['experiment'] = dfimport['experiment'].str.replace('single_ortho','single-ortho')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "id": "016bcbd2-025a-49c8-be3c-18b99a264f2a",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
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       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>experiment</th>\n",
       "      <th>sample_name</th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
       "      <th>Exp.errs. too high</th>\n",
       "      <th>Min Q too low</th>\n",
       "      <th>...</th>\n",
       "      <th>Ratio Too short</th>\n",
       "      <th>Ratio No alignment found</th>\n",
       "      <th>Ratio Too many diffs</th>\n",
       "      <th>Ratio Overlap too short</th>\n",
       "      <th>Ratio Exp.errs. too high</th>\n",
       "      <th>Ratio Min Q too low</th>\n",
       "      <th>strain</th>\n",
       "      <th>locus</th>\n",
       "      <th>pool_type</th>\n",
       "      <th>compound</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input1</td>\n",
       "      <td>23620097</td>\n",
       "      <td>21761450</td>\n",
       "      <td>0</td>\n",
       "      <td>33059</td>\n",
       "      <td>45</td>\n",
       "      <td>0</td>\n",
       "      <td>256325</td>\n",
       "      <td>1569218</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001400</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.010852</td>\n",
       "      <td>0.066436</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input2</td>\n",
       "      <td>22876785</td>\n",
       "      <td>21124254</td>\n",
       "      <td>0</td>\n",
       "      <td>28005</td>\n",
       "      <td>39</td>\n",
       "      <td>0</td>\n",
       "      <td>219385</td>\n",
       "      <td>1505102</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001224</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.009590</td>\n",
       "      <td>0.065792</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input3</td>\n",
       "      <td>27765843</td>\n",
       "      <td>25798503</td>\n",
       "      <td>0</td>\n",
       "      <td>38433</td>\n",
       "      <td>59</td>\n",
       "      <td>0</td>\n",
       "      <td>285137</td>\n",
       "      <td>1643711</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001384</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.010269</td>\n",
       "      <td>0.059199</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin1</td>\n",
       "      <td>21408249</td>\n",
       "      <td>19499748</td>\n",
       "      <td>0</td>\n",
       "      <td>32178</td>\n",
       "      <td>30</td>\n",
       "      <td>0</td>\n",
       "      <td>248887</td>\n",
       "      <td>1627406</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001503</td>\n",
       "      <td>0.000001</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.011626</td>\n",
       "      <td>0.076018</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin2</td>\n",
       "      <td>25780633</td>\n",
       "      <td>23584417</td>\n",
       "      <td>0</td>\n",
       "      <td>44107</td>\n",
       "      <td>54</td>\n",
       "      <td>0</td>\n",
       "      <td>320120</td>\n",
       "      <td>1831935</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001711</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.012417</td>\n",
       "      <td>0.071059</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
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       "      <th>674</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output2none2</td>\n",
       "      <td>186713</td>\n",
       "      <td>175835</td>\n",
       "      <td>0</td>\n",
       "      <td>261</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1205</td>\n",
       "      <td>9412</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001398</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006454</td>\n",
       "      <td>0.050409</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>675</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output2none3</td>\n",
       "      <td>260944</td>\n",
       "      <td>246790</td>\n",
       "      <td>0</td>\n",
       "      <td>337</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1686</td>\n",
       "      <td>12131</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001291</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006461</td>\n",
       "      <td>0.046489</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>676</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output3none1</td>\n",
       "      <td>199210</td>\n",
       "      <td>187864</td>\n",
       "      <td>0</td>\n",
       "      <td>286</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1269</td>\n",
       "      <td>9791</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001436</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006370</td>\n",
       "      <td>0.049149</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>677</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output3none2</td>\n",
       "      <td>186713</td>\n",
       "      <td>175835</td>\n",
       "      <td>0</td>\n",
       "      <td>261</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1205</td>\n",
       "      <td>9412</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001398</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006454</td>\n",
       "      <td>0.050409</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>678</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output3none3</td>\n",
       "      <td>260944</td>\n",
       "      <td>246790</td>\n",
       "      <td>0</td>\n",
       "      <td>337</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1686</td>\n",
       "      <td>12131</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001291</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006461</td>\n",
       "      <td>0.046489</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>679 rows × 22 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                               experiment            sample_name     Pairs  \\\n",
       "0    BY4741_FKS1-HS1_double_anidulafungin                 input1  23620097   \n",
       "1    BY4741_FKS1-HS1_double_anidulafungin                 input2  22876785   \n",
       "2    BY4741_FKS1-HS1_double_anidulafungin                 input3  27765843   \n",
       "3    BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin1  21408249   \n",
       "4    BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin2  25780633   \n",
       "..                                    ...                    ...       ...   \n",
       "674      R1158_FKS2-HS2_single-ortho_none           output2none2    186713   \n",
       "675      R1158_FKS2-HS2_single-ortho_none           output2none3    260944   \n",
       "676      R1158_FKS2-HS2_single-ortho_none           output3none1    199210   \n",
       "677      R1158_FKS2-HS2_single-ortho_none           output3none2    186713   \n",
       "678      R1158_FKS2-HS2_single-ortho_none           output3none3    260944   \n",
       "\n",
       "       Merged  Too short  No alignment found  Too many diffs  \\\n",
       "0    21761450          0               33059              45   \n",
       "1    21124254          0               28005              39   \n",
       "2    25798503          0               38433              59   \n",
       "3    19499748          0               32178              30   \n",
       "4    23584417          0               44107              54   \n",
       "..        ...        ...                 ...             ...   \n",
       "674    175835          0                 261               0   \n",
       "675    246790          0                 337               0   \n",
       "676    187864          0                 286               0   \n",
       "677    175835          0                 261               0   \n",
       "678    246790          0                 337               0   \n",
       "\n",
       "     Overlap too short  Exp.errs. too high  Min Q too low  ...  \\\n",
       "0                    0              256325        1569218  ...   \n",
       "1                    0              219385        1505102  ...   \n",
       "2                    0              285137        1643711  ...   \n",
       "3                    0              248887        1627406  ...   \n",
       "4                    0              320120        1831935  ...   \n",
       "..                 ...                 ...            ...  ...   \n",
       "674                  0                1205           9412  ...   \n",
       "675                  0                1686          12131  ...   \n",
       "676                  0                1269           9791  ...   \n",
       "677                  0                1205           9412  ...   \n",
       "678                  0                1686          12131  ...   \n",
       "\n",
       "     Ratio Too short  Ratio No alignment found  Ratio Too many diffs  \\\n",
       "0                0.0                  0.001400              0.000002   \n",
       "1                0.0                  0.001224              0.000002   \n",
       "2                0.0                  0.001384              0.000002   \n",
       "3                0.0                  0.001503              0.000001   \n",
       "4                0.0                  0.001711              0.000002   \n",
       "..               ...                       ...                   ...   \n",
       "674              0.0                  0.001398              0.000000   \n",
       "675              0.0                  0.001291              0.000000   \n",
       "676              0.0                  0.001436              0.000000   \n",
       "677              0.0                  0.001398              0.000000   \n",
       "678              0.0                  0.001291              0.000000   \n",
       "\n",
       "     Ratio Overlap too short  Ratio Exp.errs. too high  Ratio Min Q too low  \\\n",
       "0                        0.0                  0.010852             0.066436   \n",
       "1                        0.0                  0.009590             0.065792   \n",
       "2                        0.0                  0.010269             0.059199   \n",
       "3                        0.0                  0.011626             0.076018   \n",
       "4                        0.0                  0.012417             0.071059   \n",
       "..                       ...                       ...                  ...   \n",
       "674                      0.0                  0.006454             0.050409   \n",
       "675                      0.0                  0.006461             0.046489   \n",
       "676                      0.0                  0.006370             0.049149   \n",
       "677                      0.0                  0.006454             0.050409   \n",
       "678                      0.0                  0.006461             0.046489   \n",
       "\n",
       "     strain     locus     pool_type       compound  \n",
       "0    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "1    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "2    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "3    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "4    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "..      ...       ...           ...            ...  \n",
       "674   R1158  FKS2-HS2  single-ortho           none  \n",
       "675   R1158  FKS2-HS2  single-ortho           none  \n",
       "676   R1158  FKS2-HS2  single-ortho           none  \n",
       "677   R1158  FKS2-HS2  single-ortho           none  \n",
       "678   R1158  FKS2-HS2  single-ortho           none  \n",
       "\n",
       "[679 rows x 22 columns]"
      ]
     },
     "execution_count": 8,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "list_attributes = ['strain', 'locus', 'pool_type', 'compound']\n",
    "dfimport[list_attributes] = dfimport.experiment.apply(lambda x: pd.Series(str(x).split('_')))\n",
    "dfimport"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "86789991-eb5f-4b55-8f67-c906c106bbd4",
   "metadata": {},
   "source": [
    "## Filter duplicates (same input for all drugs)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "id": "3e670cff-a604-41ab-aad2-a1782d50289c",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
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       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>experiment</th>\n",
       "      <th>sample_name</th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
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       "      <th>Min Q too low</th>\n",
       "      <th>...</th>\n",
       "      <th>Ratio Too short</th>\n",
       "      <th>Ratio No alignment found</th>\n",
       "      <th>Ratio Too many diffs</th>\n",
       "      <th>Ratio Overlap too short</th>\n",
       "      <th>Ratio Exp.errs. too high</th>\n",
       "      <th>Ratio Min Q too low</th>\n",
       "      <th>strain</th>\n",
       "      <th>locus</th>\n",
       "      <th>pool_type</th>\n",
       "      <th>compound</th>\n",
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       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
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       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input2</td>\n",
       "      <td>22876785</td>\n",
       "      <td>21124254</td>\n",
       "      <td>0</td>\n",
       "      <td>28005</td>\n",
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       "      <td>0</td>\n",
       "      <td>219385</td>\n",
       "      <td>1505102</td>\n",
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       "      <td>0.0</td>\n",
       "      <td>0.001224</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.009590</td>\n",
       "      <td>0.065792</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>input3</td>\n",
       "      <td>27765843</td>\n",
       "      <td>25798503</td>\n",
       "      <td>0</td>\n",
       "      <td>38433</td>\n",
       "      <td>59</td>\n",
       "      <td>0</td>\n",
       "      <td>285137</td>\n",
       "      <td>1643711</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001384</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.010269</td>\n",
       "      <td>0.059199</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin1</td>\n",
       "      <td>21408249</td>\n",
       "      <td>19499748</td>\n",
       "      <td>0</td>\n",
       "      <td>32178</td>\n",
       "      <td>30</td>\n",
       "      <td>0</td>\n",
       "      <td>248887</td>\n",
       "      <td>1627406</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001503</td>\n",
       "      <td>0.000001</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.011626</td>\n",
       "      <td>0.076018</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BY4741_FKS1-HS1_double_anidulafungin</td>\n",
       "      <td>output1anidulafungin2</td>\n",
       "      <td>25780633</td>\n",
       "      <td>23584417</td>\n",
       "      <td>0</td>\n",
       "      <td>44107</td>\n",
       "      <td>54</td>\n",
       "      <td>0</td>\n",
       "      <td>320120</td>\n",
       "      <td>1831935</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001711</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.012417</td>\n",
       "      <td>0.071059</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>659</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_micafungin</td>\n",
       "      <td>output1micafungin2</td>\n",
       "      <td>134266</td>\n",
       "      <td>127398</td>\n",
       "      <td>0</td>\n",
       "      <td>151</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>817</td>\n",
       "      <td>5900</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001125</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006085</td>\n",
       "      <td>0.043943</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>micafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>660</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_micafungin</td>\n",
       "      <td>output1micafungin3</td>\n",
       "      <td>325424</td>\n",
       "      <td>304480</td>\n",
       "      <td>0</td>\n",
       "      <td>522</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>2526</td>\n",
       "      <td>17896</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001604</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.007762</td>\n",
       "      <td>0.054993</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>micafungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>670</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output1none1</td>\n",
       "      <td>199210</td>\n",
       "      <td>187864</td>\n",
       "      <td>0</td>\n",
       "      <td>286</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1269</td>\n",
       "      <td>9791</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001436</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006370</td>\n",
       "      <td>0.049149</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>671</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output1none2</td>\n",
       "      <td>186713</td>\n",
       "      <td>175835</td>\n",
       "      <td>0</td>\n",
       "      <td>261</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1205</td>\n",
       "      <td>9412</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001398</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006454</td>\n",
       "      <td>0.050409</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>672</th>\n",
       "      <td>R1158_FKS2-HS2_single-ortho_none</td>\n",
       "      <td>output1none3</td>\n",
       "      <td>260944</td>\n",
       "      <td>246790</td>\n",
       "      <td>0</td>\n",
       "      <td>337</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>1686</td>\n",
       "      <td>12131</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001291</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.006461</td>\n",
       "      <td>0.046489</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>223 rows × 22 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                                 experiment            sample_name     Pairs  \\\n",
       "0      BY4741_FKS1-HS1_double_anidulafungin                 input1  23620097   \n",
       "1      BY4741_FKS1-HS1_double_anidulafungin                 input2  22876785   \n",
       "2      BY4741_FKS1-HS1_double_anidulafungin                 input3  27765843   \n",
       "3      BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin1  21408249   \n",
       "4      BY4741_FKS1-HS1_double_anidulafungin  output1anidulafungin2  25780633   \n",
       "..                                      ...                    ...       ...   \n",
       "659  R1158_FKS2-HS2_single-ortho_micafungin     output1micafungin2    134266   \n",
       "660  R1158_FKS2-HS2_single-ortho_micafungin     output1micafungin3    325424   \n",
       "670        R1158_FKS2-HS2_single-ortho_none           output1none1    199210   \n",
       "671        R1158_FKS2-HS2_single-ortho_none           output1none2    186713   \n",
       "672        R1158_FKS2-HS2_single-ortho_none           output1none3    260944   \n",
       "\n",
       "       Merged  Too short  No alignment found  Too many diffs  \\\n",
       "0    21761450          0               33059              45   \n",
       "1    21124254          0               28005              39   \n",
       "2    25798503          0               38433              59   \n",
       "3    19499748          0               32178              30   \n",
       "4    23584417          0               44107              54   \n",
       "..        ...        ...                 ...             ...   \n",
       "659    127398          0                 151               0   \n",
       "660    304480          0                 522               0   \n",
       "670    187864          0                 286               0   \n",
       "671    175835          0                 261               0   \n",
       "672    246790          0                 337               0   \n",
       "\n",
       "     Overlap too short  Exp.errs. too high  Min Q too low  ...  \\\n",
       "0                    0              256325        1569218  ...   \n",
       "1                    0              219385        1505102  ...   \n",
       "2                    0              285137        1643711  ...   \n",
       "3                    0              248887        1627406  ...   \n",
       "4                    0              320120        1831935  ...   \n",
       "..                 ...                 ...            ...  ...   \n",
       "659                  0                 817           5900  ...   \n",
       "660                  0                2526          17896  ...   \n",
       "670                  0                1269           9791  ...   \n",
       "671                  0                1205           9412  ...   \n",
       "672                  0                1686          12131  ...   \n",
       "\n",
       "     Ratio Too short  Ratio No alignment found  Ratio Too many diffs  \\\n",
       "0                0.0                  0.001400              0.000002   \n",
       "1                0.0                  0.001224              0.000002   \n",
       "2                0.0                  0.001384              0.000002   \n",
       "3                0.0                  0.001503              0.000001   \n",
       "4                0.0                  0.001711              0.000002   \n",
       "..               ...                       ...                   ...   \n",
       "659              0.0                  0.001125              0.000000   \n",
       "660              0.0                  0.001604              0.000000   \n",
       "670              0.0                  0.001436              0.000000   \n",
       "671              0.0                  0.001398              0.000000   \n",
       "672              0.0                  0.001291              0.000000   \n",
       "\n",
       "     Ratio Overlap too short  Ratio Exp.errs. too high  Ratio Min Q too low  \\\n",
       "0                        0.0                  0.010852             0.066436   \n",
       "1                        0.0                  0.009590             0.065792   \n",
       "2                        0.0                  0.010269             0.059199   \n",
       "3                        0.0                  0.011626             0.076018   \n",
       "4                        0.0                  0.012417             0.071059   \n",
       "..                       ...                       ...                  ...   \n",
       "659                      0.0                  0.006085             0.043943   \n",
       "660                      0.0                  0.007762             0.054993   \n",
       "670                      0.0                  0.006370             0.049149   \n",
       "671                      0.0                  0.006454             0.050409   \n",
       "672                      0.0                  0.006461             0.046489   \n",
       "\n",
       "     strain     locus     pool_type       compound  \n",
       "0    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "1    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "2    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "3    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "4    BY4741  FKS1-HS1        double  anidulafungin  \n",
       "..      ...       ...           ...            ...  \n",
       "659   R1158  FKS2-HS2  single-ortho     micafungin  \n",
       "660   R1158  FKS2-HS2  single-ortho     micafungin  \n",
       "670   R1158  FKS2-HS2  single-ortho           none  \n",
       "671   R1158  FKS2-HS2  single-ortho           none  \n",
       "672   R1158  FKS2-HS2  single-ortho           none  \n",
       "\n",
       "[223 rows x 22 columns]"
      ]
     },
     "execution_count": 9,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport.drop_duplicates('Pairs', inplace=True)\n",
    "dfimport"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "id": "21b1d2f1-277c-4d82-bf59-1693de0d01c7",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
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       "        vertical-align: middle;\n",
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       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
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       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
       "      <th>Exp.errs. too high</th>\n",
       "      <th>Min Q too low</th>\n",
       "      <th>Ratio Pairs</th>\n",
       "      <th>Ratio Merged</th>\n",
       "      <th>Ratio Too short</th>\n",
       "      <th>Ratio No alignment found</th>\n",
       "      <th>Ratio Too many diffs</th>\n",
       "      <th>Ratio Overlap too short</th>\n",
       "      <th>Ratio Exp.errs. too high</th>\n",
       "      <th>Ratio Min Q too low</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>count</th>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>223.0</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>223.0</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>223.0</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>2.230000e+02</td>\n",
       "      <td>223.000000</td>\n",
       "      <td>223.000000</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>mean</th>\n",
       "      <td>9.430629e+06</td>\n",
       "      <td>8.525891e+06</td>\n",
       "      <td>0.0</td>\n",
       "      <td>22062.215247</td>\n",
       "      <td>3.246637</td>\n",
       "      <td>0.215247</td>\n",
       "      <td>1.198949e+05</td>\n",
       "      <td>7.627775e+05</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.910867</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.002212</td>\n",
       "      <td>3.395016e-07</td>\n",
       "      <td>1.521424e-08</td>\n",
       "      <td>0.011813</td>\n",
       "      <td>0.075107</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>std</th>\n",
       "      <td>9.995589e+06</td>\n",
       "      <td>9.011316e+06</td>\n",
       "      <td>0.0</td>\n",
       "      <td>46990.942380</td>\n",
       "      <td>11.843087</td>\n",
       "      <td>0.793181</td>\n",
       "      <td>1.941178e+05</td>\n",
       "      <td>1.268817e+06</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.058825</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.002158</td>\n",
       "      <td>1.196188e-06</td>\n",
       "      <td>5.814124e-08</td>\n",
       "      <td>0.007886</td>\n",
       "      <td>0.049405</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>min</th>\n",
       "      <td>1.007800e+04</td>\n",
       "      <td>8.500000e+03</td>\n",
       "      <td>0.0</td>\n",
       "      <td>57.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>2.200000e+02</td>\n",
       "      <td>1.301000e+03</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.470878</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.000603</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.003790</td>\n",
       "      <td>0.039066</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>25%</th>\n",
       "      <td>2.118380e+05</td>\n",
       "      <td>1.951470e+05</td>\n",
       "      <td>0.0</td>\n",
       "      <td>363.500000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>2.010000e+03</td>\n",
       "      <td>1.328850e+04</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.895513</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001146</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.007558</td>\n",
       "      <td>0.051767</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>50%</th>\n",
       "      <td>5.030220e+05</td>\n",
       "      <td>4.304970e+05</td>\n",
       "      <td>0.0</td>\n",
       "      <td>3078.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>1.215400e+04</td>\n",
       "      <td>5.794200e+04</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.928789</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.001515</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.009444</td>\n",
       "      <td>0.060106</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>75%</th>\n",
       "      <td>1.832250e+07</td>\n",
       "      <td>1.672554e+07</td>\n",
       "      <td>0.0</td>\n",
       "      <td>25440.000000</td>\n",
       "      <td>1.000000</td>\n",
       "      <td>0.000000</td>\n",
       "      <td>1.852080e+05</td>\n",
       "      <td>1.105726e+06</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.938120</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.002649</td>\n",
       "      <td>7.658935e-08</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.014470</td>\n",
       "      <td>0.086541</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>max</th>\n",
       "      <td>3.273414e+07</td>\n",
       "      <td>2.921892e+07</td>\n",
       "      <td>0.0</td>\n",
       "      <td>531575.000000</td>\n",
       "      <td>118.000000</td>\n",
       "      <td>6.000000</td>\n",
       "      <td>1.780943e+06</td>\n",
       "      <td>1.179626e+07</td>\n",
       "      <td>1.0</td>\n",
       "      <td>0.953873</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.019936</td>\n",
       "      <td>1.249599e-05</td>\n",
       "      <td>5.376393e-07</td>\n",
       "      <td>0.066790</td>\n",
       "      <td>0.442392</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "              Pairs        Merged  Too short  No alignment found  \\\n",
       "count  2.230000e+02  2.230000e+02      223.0          223.000000   \n",
       "mean   9.430629e+06  8.525891e+06        0.0        22062.215247   \n",
       "std    9.995589e+06  9.011316e+06        0.0        46990.942380   \n",
       "min    1.007800e+04  8.500000e+03        0.0           57.000000   \n",
       "25%    2.118380e+05  1.951470e+05        0.0          363.500000   \n",
       "50%    5.030220e+05  4.304970e+05        0.0         3078.000000   \n",
       "75%    1.832250e+07  1.672554e+07        0.0        25440.000000   \n",
       "max    3.273414e+07  2.921892e+07        0.0       531575.000000   \n",
       "\n",
       "       Too many diffs  Overlap too short  Exp.errs. too high  Min Q too low  \\\n",
       "count      223.000000         223.000000        2.230000e+02   2.230000e+02   \n",
       "mean         3.246637           0.215247        1.198949e+05   7.627775e+05   \n",
       "std         11.843087           0.793181        1.941178e+05   1.268817e+06   \n",
       "min          0.000000           0.000000        2.200000e+02   1.301000e+03   \n",
       "25%          0.000000           0.000000        2.010000e+03   1.328850e+04   \n",
       "50%          0.000000           0.000000        1.215400e+04   5.794200e+04   \n",
       "75%          1.000000           0.000000        1.852080e+05   1.105726e+06   \n",
       "max        118.000000           6.000000        1.780943e+06   1.179626e+07   \n",
       "\n",
       "       Ratio Pairs  Ratio Merged  Ratio Too short  Ratio No alignment found  \\\n",
       "count        223.0    223.000000            223.0                223.000000   \n",
       "mean           1.0      0.910867              0.0                  0.002212   \n",
       "std            0.0      0.058825              0.0                  0.002158   \n",
       "min            1.0      0.470878              0.0                  0.000603   \n",
       "25%            1.0      0.895513              0.0                  0.001146   \n",
       "50%            1.0      0.928789              0.0                  0.001515   \n",
       "75%            1.0      0.938120              0.0                  0.002649   \n",
       "max            1.0      0.953873              0.0                  0.019936   \n",
       "\n",
       "       Ratio Too many diffs  Ratio Overlap too short  \\\n",
       "count          2.230000e+02             2.230000e+02   \n",
       "mean           3.395016e-07             1.521424e-08   \n",
       "std            1.196188e-06             5.814124e-08   \n",
       "min            0.000000e+00             0.000000e+00   \n",
       "25%            0.000000e+00             0.000000e+00   \n",
       "50%            0.000000e+00             0.000000e+00   \n",
       "75%            7.658935e-08             0.000000e+00   \n",
       "max            1.249599e-05             5.376393e-07   \n",
       "\n",
       "       Ratio Exp.errs. too high  Ratio Min Q too low  \n",
       "count                223.000000           223.000000  \n",
       "mean                   0.011813             0.075107  \n",
       "std                    0.007886             0.049405  \n",
       "min                    0.003790             0.039066  \n",
       "25%                    0.007558             0.051767  \n",
       "50%                    0.009444             0.060106  \n",
       "75%                    0.014470             0.086541  \n",
       "max                    0.066790             0.442392  "
      ]
     },
     "execution_count": 10,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport.describe()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "id": "2823c074-9ce9-4270-98f2-19cd1dc03e53",
   "metadata": {
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   "outputs": [
    {
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       "  <thead>\n",
       "    <tr>\n",
       "      <th></th>\n",
       "      <th colspan=\"8\" halign=\"left\">Merged</th>\n",
       "      <th colspan=\"8\" halign=\"left\">Ratio Merged</th>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th></th>\n",
       "      <th>count</th>\n",
       "      <th>mean</th>\n",
       "      <th>std</th>\n",
       "      <th>min</th>\n",
       "      <th>25%</th>\n",
       "      <th>50%</th>\n",
       "      <th>75%</th>\n",
       "      <th>max</th>\n",
       "      <th>count</th>\n",
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       "      <th>std</th>\n",
       "      <th>min</th>\n",
       "      <th>25%</th>\n",
       "      <th>50%</th>\n",
       "      <th>75%</th>\n",
       "      <th>max</th>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>pool_type</th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
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       "  <tbody>\n",
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       "      <th>double</th>\n",
       "      <td>111.0</td>\n",
       "      <td>1.692732e+07</td>\n",
       "      <td>4.697316e+06</td>\n",
       "      <td>1661885.0</td>\n",
       "      <td>13148708.50</td>\n",
       "      <td>16819704.0</td>\n",
       "      <td>19964738.50</td>\n",
       "      <td>29218918.0</td>\n",
       "      <td>111.0</td>\n",
       "      <td>0.908833</td>\n",
       "      <td>0.068789</td>\n",
       "      <td>0.470878</td>\n",
       "      <td>0.900532</td>\n",
       "      <td>0.928789</td>\n",
       "      <td>0.938863</td>\n",
       "      <td>0.950954</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>single-ortho</th>\n",
       "      <td>112.0</td>\n",
       "      <td>1.994705e+05</td>\n",
       "      <td>6.085895e+04</td>\n",
       "      <td>8500.0</td>\n",
       "      <td>153815.75</td>\n",
       "      <td>195147.0</td>\n",
       "      <td>242566.75</td>\n",
       "      <td>430497.0</td>\n",
       "      <td>112.0</td>\n",
       "      <td>0.912884</td>\n",
       "      <td>0.047149</td>\n",
       "      <td>0.551229</td>\n",
       "      <td>0.891750</td>\n",
       "      <td>0.928814</td>\n",
       "      <td>0.935922</td>\n",
       "      <td>0.953873</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "             Merged                                                      \\\n",
       "              count          mean           std        min          25%   \n",
       "pool_type                                                                 \n",
       "double        111.0  1.692732e+07  4.697316e+06  1661885.0  13148708.50   \n",
       "single-ortho  112.0  1.994705e+05  6.085895e+04     8500.0    153815.75   \n",
       "\n",
       "                                                  Ratio Merged            \\\n",
       "                     50%          75%         max        count      mean   \n",
       "pool_type                                                                  \n",
       "double        16819704.0  19964738.50  29218918.0        111.0  0.908833   \n",
       "single-ortho    195147.0    242566.75    430497.0        112.0  0.912884   \n",
       "\n",
       "                                                                          \n",
       "                   std       min       25%       50%       75%       max  \n",
       "pool_type                                                                 \n",
       "double        0.068789  0.470878  0.900532  0.928789  0.938863  0.950954  \n",
       "single-ortho  0.047149  0.551229  0.891750  0.928814  0.935922  0.953873  "
      ]
     },
     "execution_count": 11,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport.groupby('pool_type')[['Merged', 'Ratio Merged']].describe()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "id": "a401a1a7-77d6-46f3-b3fb-19659657f384",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
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       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>experiment</th>\n",
       "      <th>sample_name</th>\n",
       "      <th>Pairs</th>\n",
       "      <th>Merged</th>\n",
       "      <th>Too short</th>\n",
       "      <th>No alignment found</th>\n",
       "      <th>Too many diffs</th>\n",
       "      <th>Overlap too short</th>\n",
       "      <th>Exp.errs. too high</th>\n",
       "      <th>Min Q too low</th>\n",
       "      <th>...</th>\n",
       "      <th>Ratio Too short</th>\n",
       "      <th>Ratio No alignment found</th>\n",
       "      <th>Ratio Too many diffs</th>\n",
       "      <th>Ratio Overlap too short</th>\n",
       "      <th>Ratio Exp.errs. too high</th>\n",
       "      <th>Ratio Min Q too low</th>\n",
       "      <th>strain</th>\n",
       "      <th>locus</th>\n",
       "      <th>pool_type</th>\n",
       "      <th>compound</th>\n",
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       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>27</th>\n",
       "      <td>BY4741_FKS1-HS1_double_micafungin</td>\n",
       "      <td>output1micafungin1</td>\n",
       "      <td>26664721</td>\n",
       "      <td>12555826</td>\n",
       "      <td>0</td>\n",
       "      <td>531575</td>\n",
       "      <td>118</td>\n",
       "      <td>0</td>\n",
       "      <td>1780943</td>\n",
       "      <td>11796259</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.019936</td>\n",
       "      <td>4.425323e-06</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.066790</td>\n",
       "      <td>0.442392</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>micafungin</td>\n",
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       "    <tr>\n",
       "      <th>161</th>\n",
       "      <td>BY4741_FKS2-HS1_double_none</td>\n",
       "      <td>input2</td>\n",
       "      <td>18224396</td>\n",
       "      <td>10758977</td>\n",
       "      <td>0</td>\n",
       "      <td>205774</td>\n",
       "      <td>1</td>\n",
       "      <td>0</td>\n",
       "      <td>873212</td>\n",
       "      <td>6386432</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.011291</td>\n",
       "      <td>5.487150e-08</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.047914</td>\n",
       "      <td>0.350433</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS2-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>224</th>\n",
       "      <td>R1158_FKS1-HS1_double_caspofungin</td>\n",
       "      <td>output1caspofungin2</td>\n",
       "      <td>21288143</td>\n",
       "      <td>11580134</td>\n",
       "      <td>0</td>\n",
       "      <td>273758</td>\n",
       "      <td>2</td>\n",
       "      <td>0</td>\n",
       "      <td>1113285</td>\n",
       "      <td>8320964</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.012860</td>\n",
       "      <td>9.394901e-08</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.052296</td>\n",
       "      <td>0.390873</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>caspofungin</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>439</th>\n",
       "      <td>R1158_FKS1-HS2_single-ortho_none</td>\n",
       "      <td>output1none1</td>\n",
       "      <td>151917</td>\n",
       "      <td>83741</td>\n",
       "      <td>0</td>\n",
       "      <td>2133</td>\n",
       "      <td>0</td>\n",
       "      <td>0</td>\n",
       "      <td>8101</td>\n",
       "      <td>57942</td>\n",
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       "      <td>0.0</td>\n",
       "      <td>0.014041</td>\n",
       "      <td>0.000000e+00</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.053325</td>\n",
       "      <td>0.381406</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>none</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>4 rows × 22 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                            experiment          sample_name     Pairs  \\\n",
       "27   BY4741_FKS1-HS1_double_micafungin   output1micafungin1  26664721   \n",
       "161        BY4741_FKS2-HS1_double_none               input2  18224396   \n",
       "224  R1158_FKS1-HS1_double_caspofungin  output1caspofungin2  21288143   \n",
       "439   R1158_FKS1-HS2_single-ortho_none         output1none1    151917   \n",
       "\n",
       "       Merged  Too short  No alignment found  Too many diffs  \\\n",
       "27   12555826          0              531575             118   \n",
       "161  10758977          0              205774               1   \n",
       "224  11580134          0              273758               2   \n",
       "439     83741          0                2133               0   \n",
       "\n",
       "     Overlap too short  Exp.errs. too high  Min Q too low  ...  \\\n",
       "27                   0             1780943       11796259  ...   \n",
       "161                  0              873212        6386432  ...   \n",
       "224                  0             1113285        8320964  ...   \n",
       "439                  0                8101          57942  ...   \n",
       "\n",
       "     Ratio Too short  Ratio No alignment found  Ratio Too many diffs  \\\n",
       "27               0.0                  0.019936          4.425323e-06   \n",
       "161              0.0                  0.011291          5.487150e-08   \n",
       "224              0.0                  0.012860          9.394901e-08   \n",
       "439              0.0                  0.014041          0.000000e+00   \n",
       "\n",
       "     Ratio Overlap too short  Ratio Exp.errs. too high  Ratio Min Q too low  \\\n",
       "27                       0.0                  0.066790             0.442392   \n",
       "161                      0.0                  0.047914             0.350433   \n",
       "224                      0.0                  0.052296             0.390873   \n",
       "439                      0.0                  0.053325             0.381406   \n",
       "\n",
       "     strain     locus     pool_type     compound  \n",
       "27   BY4741  FKS1-HS1        double   micafungin  \n",
       "161  BY4741  FKS2-HS1        double         none  \n",
       "224   R1158  FKS1-HS1        double  caspofungin  \n",
       "439   R1158  FKS1-HS2  single-ortho         none  \n",
       "\n",
       "[4 rows x 22 columns]"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport[dfimport['Ratio Merged'] < 0.7]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "id": "77e5d9c0-d603-4883-a2ea-1714fc9f5cde",
   "metadata": {
    "tags": []
   },
   "outputs": [
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       "      <th>390</th>\n",
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       "      <td>220</td>\n",
       "      <td>1301</td>\n",
       "      <td>...</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.005656</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.0</td>\n",
       "      <td>0.02183</td>\n",
       "      <td>0.129093</td>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>anidulafungin</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>1 rows × 22 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                                    experiment sample_name  Pairs  Merged  \\\n",
       "390  R1158_FKS1-HS2_single-ortho_anidulafungin      input3  10078    8500   \n",
       "\n",
       "     Too short  No alignment found  Too many diffs  Overlap too short  \\\n",
       "390          0                  57               0                  0   \n",
       "\n",
       "     Exp.errs. too high  Min Q too low  ...  Ratio Too short  \\\n",
       "390                 220           1301  ...              0.0   \n",
       "\n",
       "     Ratio No alignment found  Ratio Too many diffs  Ratio Overlap too short  \\\n",
       "390                  0.005656                   0.0                      0.0   \n",
       "\n",
       "     Ratio Exp.errs. too high  Ratio Min Q too low  strain     locus  \\\n",
       "390                   0.02183             0.129093   R1158  FKS1-HS2   \n",
       "\n",
       "        pool_type       compound  \n",
       "390  single-ortho  anidulafungin  \n",
       "\n",
       "[1 rows x 22 columns]"
      ]
     },
     "execution_count": 13,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dfimport[dfimport['Merged'] < 1e4]"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "e199d122-86ed-4321-8032-203661346aa3",
   "metadata": {},
   "source": [
    "## Coverage based on exact number of expected variants"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "43514785-c156-4e76-bca1-1621a453d77f",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/plain": [
       "{'FKS1-HS1': {'single-ortho': 334, 'double': 35878},\n",
       " 'FKS1-HS2': {'single-ortho': 346, 'double': 27594},\n",
       " 'FKS2-HS1': {'single-ortho': 295, 'double': 28480},\n",
       " 'FKS2-HS2': {'single-ortho': 315, 'double': 27814}}"
      ]
     },
     "execution_count": 14,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "expec_dict = {}\n",
    "for l in ['FKS1-HS1','FKS1-HS2','FKS2-HS1','FKS2-HS2']:\n",
    "    expec_dict[l] = {}\n",
    "    vardf = pd.read_csv(f'{data_path}/{l}/{l}_var_df.csv', header=0, index_col=0)\n",
    "    expec_dict[l]['single-ortho'] = len(vardf[vardf.seq_type.isin(['WT','single','ortho'])\n",
    "                                             ].groupby('nt_seq')\n",
    "                                       )\n",
    "    expec_dict[l]['double'] = len(vardf[vardf.seq_type.isin(['WT','single','double'])\n",
    "                                       ].groupby('nt_seq')\n",
    "                                 )\n",
    "\n",
    "expec_dict"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "id": "82c10be4-af76-4c51-a7cc-ce0fc07711e5",
   "metadata": {
    "tags": []
   },
   "outputs": [],
   "source": [
    "dfimport['Coverage'] = dfimport.apply(lambda row: row.Merged / expec_dict[row.locus][row.pool_type], axis=1)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "id": "16082d25-1200-41bc-aa05-9e705033faad",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
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       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>strain</th>\n",
       "      <th>locus</th>\n",
       "      <th>pool_type</th>\n",
       "      <th>Coverage</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>606.540220</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>580.115269</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>double</td>\n",
       "      <td>461.297873</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>653.349711</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS2-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>572.775211</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS2-HS1</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>718.088136</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>double</td>\n",
       "      <td>475.511936</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>BY4741</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>773.260317</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>574.570322</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS1</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>731.523952</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>double</td>\n",
       "      <td>436.861637</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS1-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>470.893064</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS1</td>\n",
       "      <td>double</td>\n",
       "      <td>695.351334</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>13</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS1</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>537.166102</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>14</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>double</td>\n",
       "      <td>365.466204</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>15</th>\n",
       "      <td>R1158</td>\n",
       "      <td>FKS2-HS2</td>\n",
       "      <td>single-ortho</td>\n",
       "      <td>473.561905</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "    strain     locus     pool_type    Coverage\n",
       "0   BY4741  FKS1-HS1        double  606.540220\n",
       "1   BY4741  FKS1-HS1  single-ortho  580.115269\n",
       "2   BY4741  FKS1-HS2        double  461.297873\n",
       "3   BY4741  FKS1-HS2  single-ortho  653.349711\n",
       "4   BY4741  FKS2-HS1        double  572.775211\n",
       "5   BY4741  FKS2-HS1  single-ortho  718.088136\n",
       "6   BY4741  FKS2-HS2        double  475.511936\n",
       "7   BY4741  FKS2-HS2  single-ortho  773.260317\n",
       "8    R1158  FKS1-HS1        double  574.570322\n",
       "9    R1158  FKS1-HS1  single-ortho  731.523952\n",
       "10   R1158  FKS1-HS2        double  436.861637\n",
       "11   R1158  FKS1-HS2  single-ortho  470.893064\n",
       "12   R1158  FKS2-HS1        double  695.351334\n",
       "13   R1158  FKS2-HS1  single-ortho  537.166102\n",
       "14   R1158  FKS2-HS2        double  365.466204\n",
       "15   R1158  FKS2-HS2  single-ortho  473.561905"
      ]
     },
     "execution_count": 16,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# Median coverage over input replicates\n",
    "med_cov_input = dfimport[dfimport.sample_name.astype(str).str.contains('input')\n",
    "                        ].groupby(['strain','locus','pool_type']\n",
    "                                 )[['Coverage']].median().reset_index()\n",
    "med_cov_input"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "id": "5481a14b-a300-442d-b763-383963721eab",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>pool_type</th>\n",
       "      <th>Coverage</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>double</td>\n",
       "      <td>523.546842</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>single-ortho</td>\n",
       "      <td>617.244807</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "      pool_type    Coverage\n",
       "0        double  523.546842\n",
       "1  single-ortho  617.244807"
      ]
     },
     "execution_count": 17,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# Average coverage for each pool_type\n",
    "avcov = med_cov_input.groupby('pool_type')[['Coverage']].mean().reset_index()\n",
    "avcov"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "f65cba14-7439-4226-9452-0da3cc332c8d",
   "metadata": {},
   "source": [
    "## Requested vs obtained **raw** reads"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "id": "2bfd53e1-bebb-4e44-9433-706e054be48b",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
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       "\n",
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       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>plate</th>\n",
       "      <th>well</th>\n",
       "      <th>strain</th>\n",
       "      <th>id</th>\n",
       "      <th>nanuq_id</th>\n",
       "      <th>i5_full_seq</th>\n",
       "      <th>i5_barcode</th>\n",
       "      <th>i5_index</th>\n",
       "      <th>i7_full_seq</th>\n",
       "      <th>i7_barcode</th>\n",
       "      <th>...</th>\n",
       "      <th>pmol_to_add</th>\n",
       "      <th>dilution factor</th>\n",
       "      <th>volume</th>\n",
       "      <th>obtained_nb_reads</th>\n",
       "      <th>obtained_%run</th>\n",
       "      <th>file_basename</th>\n",
       "      <th>Unnamed: 30</th>\n",
       "      <th>total_reads</th>\n",
       "      <th>800000000</th>\n",
       "      <th>Unnamed: 33</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>3</td>\n",
       "      <td>A7</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>1</td>\n",
       "      <td>BY4741_1</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTTGAGCTCTCGTCGGCA...</td>\n",
       "      <td>TTGAGCTC</td>\n",
       "      <td>B501</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATCAGGATGTGTCTCGTGGGCTCGG</td>\n",
       "      <td>CAGGATGT</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000833</td>\n",
       "      <td>200</td>\n",
       "      <td>1.812794</td>\n",
       "      <td>250628</td>\n",
       "      <td>0.000115</td>\n",
       "      <td>NS.2013.002.B715---B501.BY4741_1</td>\n",
       "      <td>NaN</td>\n",
       "      <td>pool_concentration (nM)</td>\n",
       "      <td>14.000000</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>3</td>\n",
       "      <td>D7</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>10</td>\n",
       "      <td>BY4741_10</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTGTCAGTGTCGTCGGCA...</td>\n",
       "      <td>TGTCAGTG</td>\n",
       "      <td>B504</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATCAGGATGTGTCTCGTGGGCTCGG</td>\n",
       "      <td>CAGGATGT</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000833</td>\n",
       "      <td>200</td>\n",
       "      <td>1.697462</td>\n",
       "      <td>120483</td>\n",
       "      <td>0.000055</td>\n",
       "      <td>NS.2013.002.B715---B504.BY4741_10</td>\n",
       "      <td>NaN</td>\n",
       "      <td>total_volume (uL)</td>\n",
       "      <td>600.000000</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>3</td>\n",
       "      <td>F8</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>11</td>\n",
       "      <td>BY4741_11</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTATGACCGTCGTCGGCA...</td>\n",
       "      <td>TATGACCG</td>\n",
       "      <td>B506</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATGTAAGCACGTCTCGTGGGCTCGG</td>\n",
       "      <td>GTAAGCAC</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000833</td>\n",
       "      <td>200</td>\n",
       "      <td>2.211300</td>\n",
       "      <td>132183</td>\n",
       "      <td>0.000061</td>\n",
       "      <td>NS.2013.002.B716---B506.BY4741_11</td>\n",
       "      <td>NaN</td>\n",
       "      <td>water_to_add (uL)</td>\n",
       "      <td>9.471176</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>1</td>\n",
       "      <td>C1</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>12</td>\n",
       "      <td>BY4741_12</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACCCTATCCTTCGTCGGCA...</td>\n",
       "      <td>CCTATCCT</td>\n",
       "      <td>D503</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATCGAGTAATGTCTCGTGGGCTCGG</td>\n",
       "      <td>CGAGTAAT</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000833</td>\n",
       "      <td>200</td>\n",
       "      <td>3.200688</td>\n",
       "      <td>242791</td>\n",
       "      <td>0.000112</td>\n",
       "      <td>NS.2013.002.D701---D503.BY4741_12</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>1</td>\n",
       "      <td>D1</td>\n",
       "      <td>BY4741</td>\n",
       "      <td>13</td>\n",
       "      <td>BY4741_13</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACGGCTCTGATCGTCGGCA...</td>\n",
       "      <td>GGCTCTGA</td>\n",
       "      <td>D504</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATCGAGTAATGTCTCGTGGGCTCGG</td>\n",
       "      <td>CGAGTAAT</td>\n",
       "      <td>...</td>\n",
       "      <td>0.088726</td>\n",
       "      <td>1</td>\n",
       "      <td>1.430498</td>\n",
       "      <td>23685933</td>\n",
       "      <td>0.010887</td>\n",
       "      <td>NS.2013.002.D701---D504.BY4741_13</td>\n",
       "      <td>NaN</td>\n",
       "      <td>Pool of non diluted samples</td>\n",
       "      <td>NaN</td>\n",
       "      <td>34.790627</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>218</th>\n",
       "      <td>3</td>\n",
       "      <td>G6</td>\n",
       "      <td>R1158</td>\n",
       "      <td>44+47</td>\n",
       "      <td>R1158_PC_44-47</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACAATTCCGGTCGTCGGCA...</td>\n",
       "      <td>AATTCCGG</td>\n",
       "      <td>B507</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGGAAGCA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.068705</td>\n",
       "      <td>4</td>\n",
       "      <td>2.130298</td>\n",
       "      <td>10969206</td>\n",
       "      <td>0.005042</td>\n",
       "      <td>NS.2013.002.B714---B507.R1158_PC_44-47</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>219</th>\n",
       "      <td>3</td>\n",
       "      <td>H6</td>\n",
       "      <td>R1158</td>\n",
       "      <td>45+48</td>\n",
       "      <td>R1158_PC_45-48</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACGTCAGTCATCGTCGGCA...</td>\n",
       "      <td>GTCAGTCA</td>\n",
       "      <td>B508</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGGAAGCA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.068705</td>\n",
       "      <td>4</td>\n",
       "      <td>2.735733</td>\n",
       "      <td>1933116</td>\n",
       "      <td>0.000889</td>\n",
       "      <td>NS.2013.002.B714---B508.R1158_PC_45-48</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>220</th>\n",
       "      <td>3</td>\n",
       "      <td>D4</td>\n",
       "      <td>R1158</td>\n",
       "      <td>7+10</td>\n",
       "      <td>R1158_PC_7-10</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTGTCAGTGTCGTCGGCA...</td>\n",
       "      <td>TGTCAGTG</td>\n",
       "      <td>B504</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGCCTCAA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.088726</td>\n",
       "      <td>4</td>\n",
       "      <td>3.080432</td>\n",
       "      <td>23037430</td>\n",
       "      <td>0.010589</td>\n",
       "      <td>NS.2013.002.B712---B504.R1158_PC_7-10</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>221</th>\n",
       "      <td>3</td>\n",
       "      <td>E4</td>\n",
       "      <td>R1158</td>\n",
       "      <td>8+11</td>\n",
       "      <td>R1158_PC_8-11</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACCGAATTGCTCGTCGGCA...</td>\n",
       "      <td>CGAATTGC</td>\n",
       "      <td>B505</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGCCTCAA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.088726</td>\n",
       "      <td>4</td>\n",
       "      <td>2.981867</td>\n",
       "      <td>16381783</td>\n",
       "      <td>0.007530</td>\n",
       "      <td>NS.2013.002.B712---B505.R1158_PC_8-11</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>222</th>\n",
       "      <td>3</td>\n",
       "      <td>F4</td>\n",
       "      <td>R1158</td>\n",
       "      <td>9+12</td>\n",
       "      <td>R1158_PC_9-12</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTATGACCGTCGTCGGCA...</td>\n",
       "      <td>TATGACCG</td>\n",
       "      <td>B506</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGCCTCAA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.088726</td>\n",
       "      <td>4</td>\n",
       "      <td>2.845077</td>\n",
       "      <td>25940041</td>\n",
       "      <td>0.011923</td>\n",
       "      <td>NS.2013.002.B712---B506.R1158_PC_9-12</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>223 rows × 34 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "     plate well  strain     id        nanuq_id  \\\n",
       "0        3   A7  BY4741      1        BY4741_1   \n",
       "1        3   D7  BY4741     10       BY4741_10   \n",
       "2        3   F8  BY4741     11       BY4741_11   \n",
       "3        1   C1  BY4741     12       BY4741_12   \n",
       "4        1   D1  BY4741     13       BY4741_13   \n",
       "..     ...  ...     ...    ...             ...   \n",
       "218      3   G6   R1158  44+47  R1158_PC_44-47   \n",
       "219      3   H6   R1158  45+48  R1158_PC_45-48   \n",
       "220      3   D4   R1158   7+10   R1158_PC_7-10   \n",
       "221      3   E4   R1158   8+11   R1158_PC_8-11   \n",
       "222      3   F4   R1158   9+12   R1158_PC_9-12   \n",
       "\n",
       "                                           i5_full_seq i5_barcode i5_index  \\\n",
       "0    AATGATACGGCGACCACCGAGATCTACACTTGAGCTCTCGTCGGCA...   TTGAGCTC     B501   \n",
       "1    AATGATACGGCGACCACCGAGATCTACACTGTCAGTGTCGTCGGCA...   TGTCAGTG     B504   \n",
       "2    AATGATACGGCGACCACCGAGATCTACACTATGACCGTCGTCGGCA...   TATGACCG     B506   \n",
       "3    AATGATACGGCGACCACCGAGATCTACACCCTATCCTTCGTCGGCA...   CCTATCCT     D503   \n",
       "4    AATGATACGGCGACCACCGAGATCTACACGGCTCTGATCGTCGGCA...   GGCTCTGA     D504   \n",
       "..                                                 ...        ...      ...   \n",
       "218  AATGATACGGCGACCACCGAGATCTACACAATTCCGGTCGTCGGCA...   AATTCCGG     B507   \n",
       "219  AATGATACGGCGACCACCGAGATCTACACGTCAGTCATCGTCGGCA...   GTCAGTCA     B508   \n",
       "220  AATGATACGGCGACCACCGAGATCTACACTGTCAGTGTCGTCGGCA...   TGTCAGTG     B504   \n",
       "221  AATGATACGGCGACCACCGAGATCTACACCGAATTGCTCGTCGGCA...   CGAATTGC     B505   \n",
       "222  AATGATACGGCGACCACCGAGATCTACACTATGACCGTCGTCGGCA...   TATGACCG     B506   \n",
       "\n",
       "                                         i7_full_seq i7_barcode  ...  \\\n",
       "0    CAAGCAGAAGACGGCATACGAGATCAGGATGTGTCTCGTGGGCTCGG   CAGGATGT  ...   \n",
       "1    CAAGCAGAAGACGGCATACGAGATCAGGATGTGTCTCGTGGGCTCGG   CAGGATGT  ...   \n",
       "2    CAAGCAGAAGACGGCATACGAGATGTAAGCACGTCTCGTGGGCTCGG   GTAAGCAC  ...   \n",
       "3    CAAGCAGAAGACGGCATACGAGATCGAGTAATGTCTCGTGGGCTCGG   CGAGTAAT  ...   \n",
       "4    CAAGCAGAAGACGGCATACGAGATCGAGTAATGTCTCGTGGGCTCGG   CGAGTAAT  ...   \n",
       "..                                               ...        ...  ...   \n",
       "218  CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG   TGGAAGCA  ...   \n",
       "219  CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG   TGGAAGCA  ...   \n",
       "220  CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG   TGCCTCAA  ...   \n",
       "221  CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG   TGCCTCAA  ...   \n",
       "222  CAAGCAGAAGACGGCATACGAGATTGCCTCAAGTCTCGTGGGCTCGG   TGCCTCAA  ...   \n",
       "\n",
       "    pmol_to_add dilution factor    volume obtained_nb_reads obtained_%run  \\\n",
       "0      0.000833             200  1.812794            250628      0.000115   \n",
       "1      0.000833             200  1.697462            120483      0.000055   \n",
       "2      0.000833             200  2.211300            132183      0.000061   \n",
       "3      0.000833             200  3.200688            242791      0.000112   \n",
       "4      0.088726               1  1.430498          23685933      0.010887   \n",
       "..          ...             ...       ...               ...           ...   \n",
       "218    0.068705               4  2.130298          10969206      0.005042   \n",
       "219    0.068705               4  2.735733           1933116      0.000889   \n",
       "220    0.088726               4  3.080432          23037430      0.010589   \n",
       "221    0.088726               4  2.981867          16381783      0.007530   \n",
       "222    0.088726               4  2.845077          25940041      0.011923   \n",
       "\n",
       "                              file_basename  Unnamed: 30  \\\n",
       "0          NS.2013.002.B715---B501.BY4741_1          NaN   \n",
       "1         NS.2013.002.B715---B504.BY4741_10          NaN   \n",
       "2         NS.2013.002.B716---B506.BY4741_11          NaN   \n",
       "3         NS.2013.002.D701---D503.BY4741_12          NaN   \n",
       "4         NS.2013.002.D701---D504.BY4741_13          NaN   \n",
       "..                                      ...          ...   \n",
       "218  NS.2013.002.B714---B507.R1158_PC_44-47          NaN   \n",
       "219  NS.2013.002.B714---B508.R1158_PC_45-48          NaN   \n",
       "220   NS.2013.002.B712---B504.R1158_PC_7-10          NaN   \n",
       "221   NS.2013.002.B712---B505.R1158_PC_8-11          NaN   \n",
       "222   NS.2013.002.B712---B506.R1158_PC_9-12          NaN   \n",
       "\n",
       "                     total_reads   800000000  Unnamed: 33  \n",
       "0        pool_concentration (nM)   14.000000          NaN  \n",
       "1              total_volume (uL)  600.000000          NaN  \n",
       "2              water_to_add (uL)    9.471176          NaN  \n",
       "3                            NaN         NaN          NaN  \n",
       "4    Pool of non diluted samples         NaN    34.790627  \n",
       "..                           ...         ...          ...  \n",
       "218                          NaN         NaN          NaN  \n",
       "219                          NaN         NaN          NaN  \n",
       "220                          NaN         NaN          NaN  \n",
       "221                          NaN         NaN          NaN  \n",
       "222                          NaN         NaN          NaN  \n",
       "\n",
       "[223 rows x 34 columns]"
      ]
     },
     "execution_count": 18,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "readdf = pd.read_excel(readinfo_path, header=0, skipfooter=2)\n",
    "readdf"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 19,
   "id": "9225241d-39bf-4f16-904c-d9fe483554ab",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>pool_type</th>\n",
       "      <th>nb_reads</th>\n",
       "      <th>obtained_nb_reads</th>\n",
       "      <th>coverage_gain_fold</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>double</td>\n",
       "      <td>7.129292e+06</td>\n",
       "      <td>1.936184e+07</td>\n",
       "      <td>2.715816</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>single_ortho</td>\n",
       "      <td>7.721970e+04</td>\n",
       "      <td>2.360462e+05</td>\n",
       "      <td>3.056814</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "      pool_type      nb_reads  obtained_nb_reads  coverage_gain_fold\n",
       "0        double  7.129292e+06       1.936184e+07            2.715816\n",
       "1  single_ortho  7.721970e+04       2.360462e+05            3.056814"
      ]
     },
     "execution_count": 19,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "readcomp = readdf.groupby('pool_type')[['nb_reads','obtained_nb_reads']].mean().reset_index()\n",
    "readcomp['coverage_gain_fold'] = readcomp['obtained_nb_reads'] / readcomp['nb_reads']\n",
    "readcomp"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "id": "2c0b49e5-93c9-4067-ace1-881ad4382a94",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<style scoped>\n",
       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
       "    .dataframe tbody tr th {\n",
       "        vertical-align: top;\n",
       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>plate</th>\n",
       "      <th>well</th>\n",
       "      <th>strain</th>\n",
       "      <th>id</th>\n",
       "      <th>nanuq_id</th>\n",
       "      <th>i5_full_seq</th>\n",
       "      <th>i5_barcode</th>\n",
       "      <th>i5_index</th>\n",
       "      <th>i7_full_seq</th>\n",
       "      <th>i7_barcode</th>\n",
       "      <th>...</th>\n",
       "      <th>pmol_to_add</th>\n",
       "      <th>dilution factor</th>\n",
       "      <th>volume</th>\n",
       "      <th>obtained_nb_reads</th>\n",
       "      <th>obtained_%run</th>\n",
       "      <th>file_basename</th>\n",
       "      <th>Unnamed: 30</th>\n",
       "      <th>total_reads</th>\n",
       "      <th>800000000</th>\n",
       "      <th>Unnamed: 33</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>202</th>\n",
       "      <td>3</td>\n",
       "      <td>A5</td>\n",
       "      <td>R1158</td>\n",
       "      <td>15+18</td>\n",
       "      <td>R1158_PC_15-18</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACTTGAGCTCTCGTCGGCA...</td>\n",
       "      <td>TTGAGCTC</td>\n",
       "      <td>B501</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATAACTGAGGGTCTCGTGGGCTCGG</td>\n",
       "      <td>AACTGAGG</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000862</td>\n",
       "      <td>200</td>\n",
       "      <td>2.104298</td>\n",
       "      <td>16267</td>\n",
       "      <td>0.000007</td>\n",
       "      <td>NS.2013.002.B713---B501.R1158_PC_15-18</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>219</th>\n",
       "      <td>3</td>\n",
       "      <td>H6</td>\n",
       "      <td>R1158</td>\n",
       "      <td>45+48</td>\n",
       "      <td>R1158_PC_45-48</td>\n",
       "      <td>AATGATACGGCGACCACCGAGATCTACACGTCAGTCATCGTCGGCA...</td>\n",
       "      <td>GTCAGTCA</td>\n",
       "      <td>B508</td>\n",
       "      <td>CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG</td>\n",
       "      <td>TGGAAGCA</td>\n",
       "      <td>...</td>\n",
       "      <td>0.068705</td>\n",
       "      <td>4</td>\n",
       "      <td>2.735733</td>\n",
       "      <td>1933116</td>\n",
       "      <td>0.000889</td>\n",
       "      <td>NS.2013.002.B714---B508.R1158_PC_45-48</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "      <td>NaN</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>2 rows × 34 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "     plate well strain     id        nanuq_id  \\\n",
       "202      3   A5  R1158  15+18  R1158_PC_15-18   \n",
       "219      3   H6  R1158  45+48  R1158_PC_45-48   \n",
       "\n",
       "                                           i5_full_seq i5_barcode i5_index  \\\n",
       "202  AATGATACGGCGACCACCGAGATCTACACTTGAGCTCTCGTCGGCA...   TTGAGCTC     B501   \n",
       "219  AATGATACGGCGACCACCGAGATCTACACGTCAGTCATCGTCGGCA...   GTCAGTCA     B508   \n",
       "\n",
       "                                         i7_full_seq i7_barcode  ...  \\\n",
       "202  CAAGCAGAAGACGGCATACGAGATAACTGAGGGTCTCGTGGGCTCGG   AACTGAGG  ...   \n",
       "219  CAAGCAGAAGACGGCATACGAGATTGGAAGCAGTCTCGTGGGCTCGG   TGGAAGCA  ...   \n",
       "\n",
       "    pmol_to_add dilution factor    volume obtained_nb_reads obtained_%run  \\\n",
       "202    0.000862             200  2.104298             16267      0.000007   \n",
       "219    0.068705               4  2.735733           1933116      0.000889   \n",
       "\n",
       "                              file_basename  Unnamed: 30  total_reads  \\\n",
       "202  NS.2013.002.B713---B501.R1158_PC_15-18          NaN          NaN   \n",
       "219  NS.2013.002.B714---B508.R1158_PC_45-48          NaN          NaN   \n",
       "\n",
       "     800000000  Unnamed: 33  \n",
       "202        NaN          NaN  \n",
       "219        NaN          NaN  \n",
       "\n",
       "[2 rows x 34 columns]"
      ]
     },
     "execution_count": 20,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "min_per_type = readdf.groupby('pool_type').agg(min_val = ('obtained_nb_reads', 'min'))\n",
    "min_per_type_val = min_per_type.min_val.tolist()\n",
    "readdf[readdf.obtained_nb_reads.isin(min_per_type_val)]"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "f07332df-78c4-457f-a4d5-b3da29e328cd",
   "metadata": {},
   "source": [
    "## Plots"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "id": "e31b4edd-c402-4f21-a81d-04486b99f990",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "image/png": 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",
      "text/plain": [
       "<Figure size 200x200 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "sns.set(rc = {'figure.figsize':(2,2),\n",
    "              'font.family':'Arial',\n",
    "              'font.size':8,\n",
    "              'legend.title_fontsize':8, 'legend.fontsize':8,\n",
    "              'axes.labelsize':8,'axes.titlesize':8,\n",
    "              'xtick.labelsize':8, 'ytick.labelsize':8,\n",
    "              'xtick.major.pad':2, 'ytick.major.pad':2,\n",
    "              'xtick.bottom': True, 'ytick.left': True,\n",
    "              'xtick.major.size':2, 'ytick.major.size':2,\n",
    "             },\n",
    "       style='ticks')\n",
    "\n",
    "fig = sns.scatterplot(data=readdf, x='nb_reads', y='obtained_nb_reads',\n",
    "                  hue='pool_type', hue_order=['single_ortho','double'], palette=['skyblue','pink'],\n",
    "                  legend=False\n",
    "                 )\n",
    "\n",
    "fig.set(xscale = 'log', yscale = 'log',\n",
    "        xlim=(1e2,1e8), ylim=(1e2,1e8),\n",
    "        xlabel='# Requested reads', ylabel='# Obtained reads'\n",
    "       )\n",
    "\n",
    "fig.plot(fig.get_xlim(), fig.get_ylim(), ls=\"--\", c=\".7\", alpha=.5)\n",
    "\n",
    "plt.savefig(f'{diagnostics_graph_outpath}/obtained_reads_stats.svg', format='svg', dpi=300)"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "e102a8d9-0c7a-4bb4-932b-e5ef18842a52",
   "metadata": {},
   "source": [
    "Version with only NNK + orthos"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 26,
   "id": "196c6323-f5ed-43f1-9150-503225e8ea89",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "image/png": 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",
      "text/plain": [
       "<Figure size 200x200 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "sns.set(rc = {'figure.figsize':(2,2),\n",
    "              'font.family':'Arial',\n",
    "              'font.size':8,\n",
    "              'legend.title_fontsize':8, 'legend.fontsize':8,\n",
    "              'axes.labelsize':8,'axes.titlesize':8,\n",
    "              'xtick.labelsize':8, 'ytick.labelsize':8,\n",
    "              'xtick.major.pad':2, 'ytick.major.pad':2,\n",
    "              'xtick.bottom': True, 'ytick.left': True,\n",
    "              'xtick.major.size':2, 'ytick.major.size':2,\n",
    "              'xtick.minor.size':2, 'ytick.minor.size':2\n",
    "             },\n",
    "       style='ticks')\n",
    "\n",
    "fig = sns.scatterplot(data=readdf[readdf.pool_type == 'single_ortho'], x='nb_reads', y='obtained_nb_reads',\n",
    "                      color='k', alpha=.2, legend=False)\n",
    "\n",
    "fig.set(xscale = 'log', yscale = 'log',\n",
    "        xlim=(1e4,1e6), ylim=(1e4,1e6),\n",
    "        xlabel='# Requested reads', ylabel='# Obtained reads'\n",
    "       )\n",
    "\n",
    "fig.plot(fig.get_xlim(), fig.get_ylim(), ls=\"--\", c=\".7\", alpha=.5)\n",
    "\n",
    "plt.savefig(f'{diagnostics_graph_outpath}/obtained_reads_stats_NNK.svg', format='svg', dpi=300)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "id": "8f651d5c-f4f9-49be-b71c-af9e90280803",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "image/png": 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",
      "text/plain": [
       "<Figure size 200x200 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "sns.set(rc = {'figure.figsize':(2,2),\n",
    "              'font.family':'Arial',\n",
    "              'font.size':8,\n",
    "              'legend.title_fontsize':8, 'legend.fontsize':8,\n",
    "              'axes.labelsize':8,'axes.titlesize':8,\n",
    "              'xtick.labelsize':8, 'ytick.labelsize':8,\n",
    "              'xtick.major.pad':2, 'ytick.major.pad':2,\n",
    "              'xtick.bottom': True, 'ytick.left': True,\n",
    "              'xtick.major.size':2, 'ytick.major.size':2,\n",
    "             },\n",
    "       style='ticks')\n",
    "\n",
    "fig = sns.scatterplot(data=dfimport, x='Ratio Merged', y='Merged',\n",
    "                      hue='pool_type', hue_order=['single-ortho','double'], palette=['skyblue','pink'],\n",
    "                      legend=False\n",
    "                     )\n",
    "\n",
    "fig.set(yscale = 'log',\n",
    "        xlim=(0.2,1), ylim=(1e2,1e8),\n",
    "        xlabel='Merged / Pairs', ylabel='# Merged reads'\n",
    "       )\n",
    "\n",
    "covd, covs = avcov.Coverage\n",
    "fig.annotate(f'Coverage\\n{covs:.0f}X\\n{covd:.0f}X',(.05,.05), xycoords='axes fraction')\n",
    "\n",
    "plt.savefig(f'{diagnostics_graph_outpath}/merged_stats.svg', format='svg', dpi=300)"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "e0de692b-02a9-4910-860f-b8da5d0ea433",
   "metadata": {},
   "source": [
    "Version with only NNK + orthos"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 27,
   "id": "6c1f3603-df2e-4477-b736-9e6a9ca38d4c",
   "metadata": {
    "tags": []
   },
   "outputs": [
    {
     "data": {
      "image/png": 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",
      "text/plain": [
       "<Figure size 200x200 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "sns.set(rc = {'figure.figsize':(2,2),\n",
    "              'font.family':'Arial',\n",
    "              'font.size':8,\n",
    "              'legend.title_fontsize':8, 'legend.fontsize':8,\n",
    "              'axes.labelsize':8,'axes.titlesize':8,\n",
    "              'xtick.labelsize':8, 'ytick.labelsize':8,\n",
    "              'xtick.major.pad':2, 'ytick.major.pad':2,\n",
    "              'xtick.bottom': True, 'ytick.left': True,\n",
    "              'xtick.major.size':2, 'ytick.major.size':2,\n",
    "              'xtick.minor.size':2, 'ytick.minor.size':2\n",
    "             },\n",
    "       style='ticks')\n",
    "\n",
    "fig = sns.scatterplot(data=dfimport[dfimport.pool_type == 'single-ortho'], x='Ratio Merged', y='Merged',\n",
    "                      color='k', alpha=.2, legend=False)\n",
    "\n",
    "fig.set(yscale = 'log',\n",
    "        xlim=(0.5,1), ylim=(1e3,1e6),\n",
    "        xlabel='Merged / Pairs', ylabel='# Merged reads'\n",
    "       )\n",
    "\n",
    "covd, covs = avcov.Coverage\n",
    "fig.annotate(f'Coverage\\n{covs:.0f}X',(.05,.05), xycoords='axes fraction')\n",
    "\n",
    "plt.savefig(f'{diagnostics_graph_outpath}/merged_stats_NNK.svg', format='svg', dpi=300)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "219d0e34-b4a5-4fdc-9adc-96c0cf2c7c12",
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
 "metadata": {
  "kernelspec": {
   "display_name": "dms-env",
   "language": "python",
   "name": "dms-env"
  },
  "language_info": {
   "codemirror_mode": {
    "name": "ipython",
    "version": 3
   },
   "file_extension": ".py",
   "mimetype": "text/x-python",
   "name": "python",
   "nbconvert_exporter": "python",
   "pygments_lexer": "ipython3",
   "version": "3.11.6"
  }
 },
 "nbformat": 4,
 "nbformat_minor": 5
}