Merge pull request #20 from KrishnaswamyLab/anndata-integration

Update example notebook, raw cells do not render in github

Author: atong01

notebooks/Example_Anndata_to_TrajectoryNet.ipynb

@@ -575,9 +575,11 @@
    ]
   },
   {
-   "cell_type": "raw",
-   "id": "3679f7f1-5236-41c5-b90c-d058fe982282",
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "e47ae2f9-746c-4dd8-a1cd-ff6d63830c42",
    "metadata": {},
+   "outputs": [],
    "source": [
     "!python -m TrajectoryNet.main --dataset adata.h5ad \\\n",
     "        --embedding_name \"pca\" \\\n",
@@ -588,9 +590,11 @@
    ]
   },
   {
-   "cell_type": "raw",
-   "id": "12bc2ac2-06a2-4e44-b851-1c481ed8d426",
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "357235ae-e1fb-4886-8121-168edcee5649",
    "metadata": {},
+   "outputs": [],
    "source": [
     "!python -m TrajectoryNet.eval --dataset adata.h5ad \\\n",
     "        --embedding_name \"pca\" \\\n",
@@ -599,6 +603,30 @@
     "        --vecint 1e-4 \\\n",
     "        --save results/tmp"
    ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "4d7a1a40-57cd-459f-a743-110696afcb2c",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "43f13d0b-9469-4428-b9f2-370998f6db5c",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "e988645e-74b8-4d5c-9ec8-fce301990b80",
+   "metadata": {},
+   "outputs": [],
+   "source": []
   }
  ],
  "metadata": {