Update karyotype.ipynb

Rolling back changes

Author: jonbrenas

notebooks/karyotype.ipynb

@@ -93,7 +93,7 @@
     "pca_df_2la, pca_evr_2la = ag3.pca(\n",
     "    region=region_2la,\n",
     "    sample_sets=sample_sets,\n",
-    "    n_snps=10_000,\n",
+    "    n_snps=50_000,\n",
     ")\n",
     "pca_df_2la = pca_df_2la.merge(kt_df_2la, on=\"sample_id\")\n",
     "pca_df_2la.head()"
@@ -180,7 +180,7 @@
     "pca_df_2rb, pca_evr_2rb = ag3.pca(\n",
     "    region=region_2rb,\n",
     "    sample_sets=sample_sets,\n",
-    "    n_snps=10_000,\n",
+    "    n_snps=50_000,\n",
     ")\n",
     "pca_df_2rb = pca_df_2rb.merge(kt_df_2rb, on=\"sample_id\")\n",
     "pca_df_2rb.head()"
@@ -262,7 +262,7 @@
     "    region=region_2rc,\n",
     "    sample_sets=sample_sets,\n",
     "    sample_query=\"taxon == 'gambiae'\",\n",
-    "    n_snps=10_000,\n",
+    "    n_snps=50_000,\n",
     ")\n",
     "pca_df_2rc_gam = pca_df_2rc_gam.merge(kt_df_2rc_gam, on=\"sample_id\")\n",
     "pca_df_2rc_gam.head()"
@@ -342,7 +342,7 @@
     "    region=region_2rc,\n",
     "    sample_sets=sample_sets,\n",
     "    sample_query=\"taxon == 'coluzzii'\",\n",
-    "    n_snps=10_000,\n",
+    "    n_snps=50_000,\n",
     ")\n",
     "pca_df_2rc_col = pca_df_2rc_col.merge(kt_df_2rc_col, on=\"sample_id\")\n",
     "pca_df_2rc_col.head()"