up edge clickable

oliviercaron · Oct 20, 2023 · 333c288 · 333c288
1 parent c192ea7
commit 333c288
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diff --git a/.ipynb_checkpoints/Untitled-checkpoint.ipynb b/.ipynb_checkpoints/Untitled-checkpoint.ipynb
diff --git a/.ipynb_checkpoints/sigmagrid_test-checkpoint.ipynb b/.ipynb_checkpoints/sigmagrid_test-checkpoint.ipynb
diff --git a/list_ref_test_to_delete.csv b/list_ref_test_to_delete.csv
diff --git a/networks.qmd b/networks.qmd
@@ -70,7 +70,7 @@ import plotly.express as px
 import re
 import inspect
 
-from ipysigma import Sigma
+from ipysigma import Sigma, SigmaGrid
 from itertools import combinations
 from datetime import datetime
 
@@ -620,18 +620,19 @@ def sigma_graph(dataframe, year_period):
     # Construct the sigma graph and customize visualization
     Sigma.write_html(G,
                  default_edge_type       = "curve",                                                # Default edge type
+                 clickable_edges         = True,                                                   # Clickable edges
                  edge_size               = "value",                                                # Set edge size
                  fullscreen              = True,                                                   # Display in fullscreen
                  label_density           = 2,                                                      # Label density
-                 label_font              = "Helvetica Neue",                                        # Label font
+                 label_font              = "Helvetica Neue",                                       # Label font
                  max_categorical_colors  = 10,                                                     # Max categorical colors
                  node_border_color_from  = 'node',                                                 # Node border color from node attribute
                  node_color              = "community",                                            # Set node colors
                  node_label_size         = "citations",                                            # Node label size
-                 node_label_size_range   = (12, 25),                                               # Node label size range
+                 node_label_size_range   = (12, 36),                                               # Node label size range
                  node_metrics            = {"community": {"name": "louvain", "resolution": 1}},    # Specify node metrics
                  node_size               = "citations",                                            # Node size
-                 node_size_range         = (3, 20),                                                # Node size range
+                 node_size_range         = (3, 30),                                                # Node size range
                  path                    = f"networks/authors/{year_period}_sigma.html",           # Output file path
                  start_layout            = 3                                                       # Start layout algorithm
                  #node_border_color      = "black",                                                # Node border color
@@ -882,7 +883,10 @@ list_references <- list_references %>%
   mutate(year = as.character(year)) %>%
   select(-`prism:coverDate`)
 
+write_csv2(list_references, 'list_ref_test_to_delete.csv')
+```
 
+```{python}
 skim(list_references)
 ```
 
@@ -1030,8 +1034,7 @@ reactable(
 
 #### Get missing data (to be done later if necessary)
 
-We have a lot of missing data when it comes to the year of publication of the articles, the title, the sourcetitle the authors, DOI.
-It could be helpful to retrieve these data so we can see them when we click on the nodes.
+We have a lot of missing data when it comes to the year of publication of the articles, the title, the sourcetitle the authors, DOI. It could be helpful to retrieve these data so we can see them when we click on the nodes.
 
 ```{r}
 #| label: citations-get-missing-data-todo
@@ -1271,7 +1274,6 @@ def sigma_graph_references(dataframe, period_label):
 
     return G
 
-
 ```
 
 ### Citations network for 2022-2023 ([click here for fullscreen](https://oliviercaron.github.io/systematic_lit_review/networks/references/2022_2023_sigma.html))
@@ -1286,6 +1288,20 @@ G_2022_2023_references = sigma_graph_references(citations_df_2022_2023, "2022_20
 #df_sorted = df_burt_constraint.sort_values(by='Burt_Constraint_Unweighted')
 #print(df_sorted)
 
+SigmaGrid.to_html(
+    G_2022_2023_references,
+    views=[{'node_size': G_2022_2023_references.in_degree}, {'node_size': 'citations_year'}],
+    node_size_range=(2, 10),
+    default_edge_type='curve',
+    path="networks/references/2022_2023_sigma_grid.html",
+)
+
+SigmaGrid(G_2022_2023_references,
+    views=[{'node_size': G_2022_2023_references.in_degree}, {'node_size': 'citations_year'}],
+    node_size_range=(2, 10),
+    default_edge_type='curve',
+    #path="networks/references/2022_2023_sigma_grid.html"
+    )
 ```
 
 ```{=html}
@@ -1347,6 +1363,7 @@ G_overall_references = sigma_graph_references(citations_df_overall, "overall")
 #| output: false
 
 
+
 # Create a dataframe with the density of each graph
 density_df_references = pd.DataFrame({
     'period': ['before-2013', '2013-2017', '2018-2021', '2022-2023', 'overall'],
@@ -1378,6 +1395,7 @@ density_df_references = pd.DataFrame({
 ```{r}
 #| label: citations-graph-density-comparison
 #| fig.cap: Comparison of network densities and average degree of nodes over time
+#| column: body-outset
 
 # Density plot
 density_plot <- ggplot() +
@@ -1412,6 +1430,6 @@ avg_degree_plot <- ggplot() +
 # Combine density and average degree plots
 density_plot / linear_density_plot / avg_degree_plot
 
-ggsave("images/citations-graph-density-comparison.png", width=27, height=18, units="cm", dpi=300)
+ggsave("images/citations-graph-density-comparison.png", width=270, height=180, units="cm", dpi=300)
 
 ```