neherlab · mmolari · Jun 10, 2026 · Mar 27, 2026 · Mar 27, 2026 · Mar 27, 2026
diff --git a/README.md b/README.md
@@ -74,7 +74,7 @@ PyPangraph is a python package with convenient utilities to load and explore the
 ```python
 import pypangraph as pp
 
-graph = pp.Pangraph.load_graph("graph.json")
+graph = pp.Pangraph.from_json("graph.json")
 print(graph)
 # pangraph object with 15 paths, 137 blocks and 1042 nodes
 ```

diff --git a/docs/docs/assets/pp_t6_core_edge_scheme.png b/docs/docs/assets/pp_t6_core_edge_scheme.png
diff --git a/docs/docs/assets/pp_t6_junction_scheme.png b/docs/docs/assets/pp_t6_junction_scheme.png
diff --git a/docs/docs/assets/pp_t7_linear_junction_plot.png b/docs/docs/assets/pp_t7_linear_junction_plot.png
diff --git a/docs/docs/assets/pp_t7_linear_junction_plot_hotspot.png b/docs/docs/assets/pp_t7_linear_junction_plot_hotspot.png
diff --git a/docs/docs/assets/pp_t7_stats_scheme.png b/docs/docs/assets/pp_t7_stats_scheme.png
diff --git a/docs/docs/assets/pp_t7_stripplot.png b/docs/docs/assets/pp_t7_stripplot.png
diff --git a/docs/docs/assets/pp_t7_transitive_scheme.png b/docs/docs/assets/pp_t7_transitive_scheme.png
diff --git a/docs/docs/assets/pp_t8_bandage.png b/docs/docs/assets/pp_t8_bandage.png
diff --git a/docs/docs/assets/pp_t8_mafft.png b/docs/docs/assets/pp_t8_mafft.png
diff --git a/docs/docs/assets/pp_t8_ncbi_viewer_IS_screenshot.png b/docs/docs/assets/pp_t8_ncbi_viewer_IS_screenshot.png
diff --git a/docs/docs/assets/pp_t8_ncbi_viewer_interrupted_gene.png b/docs/docs/assets/pp_t8_ncbi_viewer_interrupted_gene.png
diff --git a/docs/docs/assets/pp_t8_positions_scheme.png b/docs/docs/assets/pp_t8_positions_scheme.png
diff --git a/docs/docs/assets/pp_t9_large_pangraph.png b/docs/docs/assets/pp_t9_large_pangraph.png
diff --git a/docs/docs/assets/pp_t9_scaffold_all.png b/docs/docs/assets/pp_t9_scaffold_all.png
diff --git a/docs/docs/assets/pp_t9_scheme.png b/docs/docs/assets/pp_t9_scheme.png
diff --git a/docs/docs/assets/pp_t9_tangled.png b/docs/docs/assets/pp_t9_tangled.png
diff --git a/docs/docs/assets/pp_t9_untangled.png b/docs/docs/assets/pp_t9_untangled.png