sample fraction

volkamerlab · Feb 1, 2025 · a56aefc · a56aefc
1 parent 762f24f
commit a56aefc
Showing 1 changed file with 7 additions and 17 deletions.
diff --git a/notebooks/custom_kinfraglib/2_2_custom_filters_analysis.ipynb b/notebooks/custom_kinfraglib/2_2_custom_filters_analysis.ipynb
@@ -228,7 +228,8 @@
    "source": [
     "fragment_library_orig = utils.read_fragment_library(PATH_DATA / \"fragment_library\")\n",
     "fragment_library = filters.prefilters.pre_filters(fragment_library_orig)\n",
-    "pd.concat(fragment_library).shape"
+    "pd.concat(fragment_library).shape\n",
+    "# NBVAL_CHECK_OUTPUT"
    ]
   },
   {
@@ -398,8 +399,7 @@
     }
    ],
    "source": [
-    "HTML(fragment_library[\"AP\"].head().to_html(notebook=True))\n",
-    "# NBVAL_CHECK_OUTPUT"
+    "HTML(fragment_library[\"AP\"].head().to_html(notebook=True))"
    ]
   },
   {
@@ -432,7 +432,8 @@
    ],
    "source": [
     "fragment_library_reduced = utils.read_fragment_library(PATH_DATA / \"fragment_library_reduced\")\n",
-    "pd.concat(fragment_library_reduced).shape"
+    "pd.concat(fragment_library_reduced).shape\n",
+    "# NBVAL_CHECK_OUTPUT"
    ]
   },
   {
@@ -584,8 +585,7 @@
     }
    ],
    "source": [
-    "HTML(fragment_library_reduced[\"AP\"].head().to_html(notebook=True))\n",
-    "# NBVAL_CHECK_OUTPUT"
+    "HTML(fragment_library_reduced[\"AP\"].head().to_html(notebook=True))"
    ]
   },
   {
@@ -1471,16 +1471,6 @@
     "    return tsne_df"
    ]
   },
-  {
-   "cell_type": "code",
-   "execution_count": 17,
-   "id": "bf4ef6ef",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "#debug_tsne(fragment_library, 0.3)"
-   ]
-  },
   {
    "cell_type": "code",
    "execution_count": 18,
@@ -1510,7 +1500,7 @@
     }
    ],
    "source": [
-    "fragment_library_subset = filters.plots.sample_subset(fragment_library, 0.3)\n",
+    "fragment_library_subset = filters.plots.sample_subset(fragment_library, 0.4)\n",
     "crds_embedded = filters.plots.create_tsne_embeddings(fragment_library_subset)\n",
     "tsne_df = filters.plots.create_tsne_plots(crds_embedded, fragment_library_subset)"
    ]