From 0bf846a08de1dae8caee3749129a74c3e69a6d7e Mon Sep 17 00:00:00 2001
From: aakan96 <aakan96@mi.fu-berlin.de>
Date: Fri, 14 Jul 2023 20:47:57 +0000
Subject: [PATCH] Update file DS_mRNA_limma_dataset_xgb_final-F.ipynb
---
.../DS_mRNA_limma_dataset_xgb_final-F.ipynb | 1142 -----------------
1 file changed, 1142 deletions(-)
diff --git a/Machine Learning/DS_mRNA_limma_dataset_xgb_final-F.ipynb b/Machine Learning/DS_mRNA_limma_dataset_xgb_final-F.ipynb
index c94fc84..a8bebcc 100644
--- a/Machine Learning/DS_mRNA_limma_dataset_xgb_final-F.ipynb
+++ b/Machine Learning/DS_mRNA_limma_dataset_xgb_final-F.ipynb
@@ -78,391 +78,6 @@
"#df_test = df_test[:-1]"
]
},
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@@ -722,391 +337,6 @@
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- " <tr>\n",
- " <th>4</th>\n",
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- " <td>495.000000</td>\n",
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- " <td>28197.000000</td>\n",
- " <td>5718.000000</td>\n",
- " <td>8192.000000</td>\n",
- " <td>6748.000000</td>\n",
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- " <td>275.000000</td>\n",
- " <td>200.000000</td>\n",
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- " <td>...</td>\n",
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- " <td>...</td>\n",
- " </tr>\n",
- " <tr>\n",
- " <th>214</th>\n",
- " <td>4.273622</td>\n",
- " <td>5.246957</td>\n",
- " <td>9.597787</td>\n",
- " <td>6.158036</td>\n",
- " <td>7.843278</td>\n",
- " <td>7.540486</td>\n",
- " <td>10.125865</td>\n",
- " <td>8.390029</td>\n",
- " <td>7.260406</td>\n",
- " <td>7.029879</td>\n",
- " <td>...</td>\n",
- " <td>4.940705</td>\n",
- " <td>9.863287</td>\n",
- " <td>6.235713</td>\n",
- " <td>7.042848</td>\n",
- " <td>7.675928</td>\n",
- " <td>7.964469</td>\n",
- " <td>6.295932</td>\n",
- " <td>5.095579</td>\n",
- " <td>8.884501</td>\n",
- " <td>1</td>\n",
- " </tr>\n",
- " <tr>\n",
- " <th>215</th>\n",
- " <td>5.587715</td>\n",
- " <td>5.008800</td>\n",
- " <td>8.983841</td>\n",
- " <td>8.052282</td>\n",
- " <td>8.080951</td>\n",
- " <td>8.557505</td>\n",
- " <td>9.603772</td>\n",
- " <td>8.493015</td>\n",
- " <td>6.808220</td>\n",
- " <td>7.442001</td>\n",
- " <td>...</td>\n",
- " <td>4.748696</td>\n",
- " <td>9.966924</td>\n",
- " <td>6.370717</td>\n",
- " <td>6.694095</td>\n",
- " <td>7.215412</td>\n",
- " <td>9.596515</td>\n",
- " <td>6.052377</td>\n",
- " <td>5.453787</td>\n",
- " <td>8.364667</td>\n",
- " <td>1</td>\n",
- " </tr>\n",
- " <tr>\n",
- " <th>216</th>\n",
- " <td>4.448848</td>\n",
- " <td>5.210555</td>\n",
- " <td>9.464238</td>\n",
- " <td>6.475869</td>\n",
- " <td>7.987815</td>\n",
- " <td>8.141677</td>\n",
- " <td>9.614827</td>\n",
- " <td>8.336654</td>\n",
- " <td>7.629702</td>\n",
- " <td>7.163679</td>\n",
- " <td>...</td>\n",
- " <td>5.044658</td>\n",
- " <td>9.909041</td>\n",
- " <td>6.399272</td>\n",
- " <td>6.468483</td>\n",
- " <td>7.134219</td>\n",
- " <td>8.123325</td>\n",
- " <td>6.016430</td>\n",
- " <td>5.066430</td>\n",
- " <td>8.760867</td>\n",
- " <td>1</td>\n",
- " </tr>\n",
- " <tr>\n",
- " <th>217</th>\n",
- " <td>5.032263</td>\n",
- " <td>4.849188</td>\n",
- " <td>9.468484</td>\n",
- " <td>7.966742</td>\n",
- " <td>8.143446</td>\n",
- " <td>8.049146</td>\n",
- " <td>9.544212</td>\n",
- " <td>8.524367</td>\n",
- " <td>6.777896</td>\n",
- " <td>7.389599</td>\n",
- " <td>...</td>\n",
- " <td>4.971315</td>\n",
- " <td>10.181616</td>\n",
- " <td>6.812211</td>\n",
- " <td>8.065029</td>\n",
- " <td>7.252720</td>\n",
- " <td>8.542159</td>\n",
- " <td>6.113286</td>\n",
- " <td>5.045287</td>\n",
- " <td>8.657596</td>\n",
- " <td>1</td>\n",
- " </tr>\n",
- " <tr>\n",
- " <th>218</th>\n",
- " <td>4.461845</td>\n",
- " <td>4.846861</td>\n",
- " <td>7.099264</td>\n",
- " <td>6.269944</td>\n",
- " <td>8.190815</td>\n",
- " <td>8.865402</td>\n",
- " <td>10.212028</td>\n",
- " <td>8.615630</td>\n",
- " <td>7.266994</td>\n",
- " <td>7.081327</td>\n",
- " <td>...</td>\n",
- " <td>5.060393</td>\n",
- " <td>10.228238</td>\n",
- " <td>6.012290</td>\n",
- " <td>6.759003</td>\n",
- " <td>7.871117</td>\n",
- " <td>6.893819</td>\n",
- " <td>5.949150</td>\n",
- " <td>5.135424</td>\n",
- " <td>8.292854</td>\n",
- " <td>1</td>\n",
- " </tr>\n",
- " </tbody>\n",
- "</table>\n",
- "<p>219 rows × 579 columns</p>\n",
- "</div>"
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- "217 8.049146 9.544212 8.524367 6.777896 7.389599 ... \n",
- "218 8.865402 10.212028 8.615630 7.266994 7.081327 ... \n",
- "\n",
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- "0 222.000000 295.000000 4598.000000 7009.000000 568.000000 \n",
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- "214 4.940705 9.863287 6.235713 7.042848 7.675928 \n",
- "215 4.748696 9.966924 6.370717 6.694095 7.215412 \n",
- "216 5.044658 9.909041 6.399272 6.468483 7.134219 \n",
- "217 4.971315 10.181616 6.812211 8.065029 7.252720 \n",
- "218 5.060393 10.228238 6.012290 6.759003 7.871117 \n",
- "\n",
- " ZNF185 ZNF365 ZNF426 ZNF710 index \n",
- "0 65123.000000 56.000000 308.000000 10385.000000 0 \n",
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- "2 65131.000000 206.000000 1251.000000 11768.000000 0 \n",
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- "4 65138.000000 188.000000 587.000000 9390.000000 0 \n",
- ".. ... ... ... ... ... \n",
- "214 7.964469 6.295932 5.095579 8.884501 1 \n",
- "215 9.596515 6.052377 5.453787 8.364667 1 \n",
- "216 8.123325 6.016430 5.066430 8.760867 1 \n",
- "217 8.542159 6.113286 5.045287 8.657596 1 \n",
- "218 6.893819 5.949150 5.135424 8.292854 1 \n",
- "\n",
- "[219 rows x 579 columns]"
- ]
- },
- "execution_count": 28,
- "metadata": {},
- "output_type": "execute_result"
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- ],
- "source": [
- "df_train"
- ]
- },
{
"cell_type": "code",
"execution_count": 29,
@@ -1211,378 +441,6 @@
"# Feature Selection"
]
},
- {
- "cell_type": "code",
- "execution_count": 34,
- "id": "f0f1977f",
- "metadata": {},
- "outputs": [
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- " <td>1251</td>\n",
- " <td>11768</td>\n",
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- " <th>3</th>\n",
- " <td>104</td>\n",
- " <td>1636</td>\n",
- " <td>19203</td>\n",
- " <td>127</td>\n",
- " <td>1518</td>\n",
- " <td>17951</td>\n",
- " <td>16854</td>\n",
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- " ABAT ABHD5 ABLIM1 ABLIM3 ACAA1 ACADM ACADVL ACD ACLY ACOT11 \\\n",
- "0 186 2603 42653 220 2132 22869 19775 4486 8835 2332 \n",
- "1 93 1137 16493 69 1816 17788 16870 7993 21434 2211 \n",
- "2 198 5593 53918 263 3490 39276 25847 4413 9212 7419 \n",
- "3 104 1636 19203 127 1518 17951 16854 12800 11939 5136 \n",
- "4 205 4720 56984 495 3309 24427 28197 5718 8192 6748 \n",
- ".. ... ... ... ... ... ... ... ... ... ... \n",
- "214 4 5 9 6 7 7 10 8 7 7 \n",
- "215 5 5 8 8 8 8 9 8 6 7 \n",
- "216 4 5 9 6 7 8 9 8 7 7 \n",
- "217 5 4 9 7 8 8 9 8 6 7 \n",
- "218 4 4 7 6 8 8 10 8 7 7 \n",
- "\n",
- " ... XYLT1 YOD1 YTHDC1 ZBTB16 ZDHHC13 ZFP64 ZNF185 ZNF365 ZNF426 \\\n",
- "0 ... 392 222 295 4598 7009 568 65123 56 308 \n",
- "1 ... 62 78 144 2132 2602 1720 13531 47 140 \n",
- "2 ... 481 355 308 1071 10289 379 65131 206 1251 \n",
- "3 ... 213 122 244 482 3578 1990 37715 66 361 \n",
- "4 ... 169 275 200 3632 7275 509 65138 188 587 \n",
- ".. ... ... ... ... ... ... ... ... ... ... \n",
- "214 ... 7 4 9 6 7 7 7 6 5 \n",
- "215 ... 7 4 9 6 6 7 9 6 5 \n",
- "216 ... 7 5 9 6 6 7 8 6 5 \n",
- "217 ... 7 4 10 6 8 7 8 6 5 \n",
- "218 ... 6 5 10 6 6 7 6 5 5 \n",
- "\n",
- " ZNF710 \n",
- "0 10385 \n",
- "1 6441 \n",
- "2 11768 \n",
- "3 8517 \n",
- "4 9390 \n",
- ".. ... \n",
- "214 8 \n",
- "215 8 \n",
- "216 8 \n",
- "217 8 \n",
- "218 8 \n",
- "\n",
- "[219 rows x 578 columns]"
- ]
- },
- "execution_count": 34,
- "metadata": {},
- "output_type": "execute_result"
- }
- ],
- "source": [
- "X"
- ]
- },
{
"cell_type": "code",
"execution_count": 35,
--
GitLab