update

neurodata · Jan 25, 2024 · f396709 · f396709
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Showing 6 changed files with 726 additions and 439 deletions.
diff --git a/docs/analysis-diet.ipynb b/docs/analysis-diet.ipynb
diff --git a/docs/analysis-hn-Copy1.ipynb b/docs/analysis-hn-Copy1.ipynb
diff --git a/docs/embeddings.ipynb b/docs/embeddings.ipynb
@@ -50,31 +50,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "omni = OmnibusEmbed(n_components=None)\n",
+    "omni = OmnibusEmbed(n_components=18)\n",
     "vol_embed = omni.fit_transform(vol_dists)"
    ]
   },
-  {
-   "cell_type": "code",
-   "execution_count": 4,
-   "id": "c61b5a1e-4963-4566-9102-f30b065429ee",
-   "metadata": {},
-   "outputs": [
-    {
-     "data": {
-      "text/plain": [
-       "(169, 332, 3)"
-      ]
-     },
-     "execution_count": 4,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
-   "source": [
-    "vol_embed.shape"
-   ]
-  },
   {
    "cell_type": "code",
    "execution_count": 70,
@@ -105,26 +84,6 @@
    "source": [
     "np.save(\"../data/embeddings/fa_embed\", fa_embed)"
    ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": 5,
-   "id": "9d69f761-983e-41dc-ad27-e99e93c57641",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "from graspologic.embed import select_dimension"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "a8c7dce5-516b-489b-a7aa-ab105e4a52eb",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "select_dimension()"
-   ]
   }
  ],
  "metadata": {

diff --git a/results/figures/allele_tests_pairwise_significant_only.png b/results/figures/allele_tests_pairwise_significant_only.png
diff --git a/results/figures/allele_tests_significant_only.png b/results/figures/allele_tests_significant_only.png
diff --git a/results/figures/diet_tests_significant_only.png b/results/figures/diet_tests_significant_only.png