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-# Fijarczyk2020_JeanTalon
-Custom code for the paper about Jean-Talon beer strain
-Paper can be downloaded [here](https://www.biorxiv.org/content/10.1101/2020.02.11.944405v1)
+### Fijarczyk2020_JeanTalon
+Custom code for the paper about Jean-Talon beer strain [The genome sequence of the Jean-Talon strain, an archeological tetraploid beer yeast from Québec](https://www.biorxiv.org/content/10.1101/2020.02.11.944405v1)
 
 
-### 01_ploidy_spore_viability_aneuploidies
+#### 01_ploidy_spore_viability_aneuploidies
 
-#### Code and input files for plotting Figure 1: results of ploidy estimation, spore viability, large copy number variants and aneuploidies
+Code and input files for plotting Figure 1: results of ploidy estimation, spore viability, large copy number variants and aneuploidies
 
-### 02_PCA_with_2_cerevisiae_datasets
+#### 02_PCA_with_2_cerevisiae_datasets
 
-#### Scripts for running PCA on two datasets of S. cerevisiae with Jean-Talon (Figure 2)
+Code for running PCA on two datasets of S. cerevisiae with Jean-Talon (Figure 2)
 
+#### 03_relatedness_to_beer_strains
 
+Code for analysing relatedness of the Jean-Talon strain to other beer strains (Figure 3)
 
+#### 04_copy_number_variation
+
+Code for analysing copy number variation (CNVs) (Figure 4 & Figure S3)
+
+#### 05_cobalt_resistance
+
+Code for analysing growth curves and plotting growth in different cobalt concentrations (Figure 4)
+
+#### 06_structural_variants
+
+Code for analysing structural variation with long reads (Figure 5 & Figures S4-S6)
+
+#### 07_draft_assemblies
+
+Code for analysing translocation using draft assemblies