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run full notebook
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@pablo-gar
pablo-gar committed Jun 16, 2023
1 parent b546e81 commit c1667fd
Showing 1 changed file with 175 additions and 13 deletions.
188 changes: 175 additions & 13 deletions api/python/notebooks/experimental/pytorch.ipynb
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Expand Up @@ -347,18 +347,19 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 9,
"id": "733ec2fb",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Epoch 1: Train Loss: 0.1156352 Accuracy 0.4472\n",
"Epoch 2: Train Loss: 0.1096967 Accuracy 0.7261\n",
"Epoch 3: Train Loss: 0.1082206 Accuracy 0.7729\n",
"Epoch 4: Train Loss: 0.1071653 Accuracy 0.8268\n"
"Epoch 1: Train Loss: 0.1156322 Accuracy 0.4494\n",
"Epoch 2: Train Loss: 0.1095988 Accuracy 0.7357\n",
"Epoch 3: Train Loss: 0.1089615 Accuracy 0.7300\n",
"Epoch 4: Train Loss: 0.1080885 Accuracy 0.7275\n",
"Epoch 5: Train Loss: 0.1101440 Accuracy 0.4220\n"
]
}
],
Expand Down Expand Up @@ -397,7 +398,7 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 10,
"id": "d3e33edc",
"metadata": {},
"outputs": [],
Expand All @@ -417,10 +418,21 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 11,
"id": "00e12182",
"metadata": {},
"outputs": [],
"outputs": [
{
"data": {
"text/plain": [
"tensor([1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1])"
]
},
"execution_count": 11,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"model.eval()\n",
"\n",
Expand All @@ -444,10 +456,25 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 12,
"id": "1cfff865",
"metadata": {},
"outputs": [],
"outputs": [
{
"data": {
"text/plain": [
"array(['basal cell', 'basal cell', 'basal cell', 'basal cell',\n",
" 'basal cell', 'basal cell', 'basal cell', 'basal cell',\n",
" 'basal cell', 'basal cell', 'basal cell', 'basal cell',\n",
" 'basal cell', 'basal cell', 'basal cell', 'basal cell'],\n",
" dtype=object)"
]
},
"execution_count": 12,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"cell_type_encoder = experiment_datapipe.obs_encoders()[\"cell_type\"]\n",
"\n",
Expand All @@ -466,10 +493,145 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 13,
"id": "f4ac8087",
"metadata": {},
"outputs": [],
"outputs": [
{
"data": {
"text/html": [
"<div>\n",
"<style scoped>\n",
" .dataframe tbody tr th:only-of-type {\n",
" vertical-align: middle;\n",
" }\n",
"\n",
" .dataframe tbody tr th {\n",
" vertical-align: top;\n",
" }\n",
"\n",
" .dataframe thead th {\n",
" text-align: right;\n",
" }\n",
"</style>\n",
"<table border=\"1\" class=\"dataframe\">\n",
" <thead>\n",
" <tr style=\"text-align: right;\">\n",
" <th></th>\n",
" <th>actual cell type</th>\n",
" <th>predicted cell type</th>\n",
" </tr>\n",
" </thead>\n",
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>2</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>3</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>4</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>5</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>6</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>7</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>8</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>9</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>10</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>11</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>12</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>13</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>14</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" <tr>\n",
" <th>15</th>\n",
" <td>epithelial cell</td>\n",
" <td>basal cell</td>\n",
" </tr>\n",
" </tbody>\n",
"</table>\n",
"</div>"
],
"text/plain": [
" actual cell type predicted cell type\n",
"0 epithelial cell basal cell\n",
"1 epithelial cell basal cell\n",
"2 epithelial cell basal cell\n",
"3 epithelial cell basal cell\n",
"4 epithelial cell basal cell\n",
"5 epithelial cell basal cell\n",
"6 epithelial cell basal cell\n",
"7 epithelial cell basal cell\n",
"8 epithelial cell basal cell\n",
"9 epithelial cell basal cell\n",
"10 epithelial cell basal cell\n",
"11 epithelial cell basal cell\n",
"12 epithelial cell basal cell\n",
"13 epithelial cell basal cell\n",
"14 epithelial cell basal cell\n",
"15 epithelial cell basal cell"
]
},
"execution_count": 13,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"import pandas as pd\n",
"\n",
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"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.9.13"
"version": "3.10.10"
}
},
"nbformat": 4,
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