Marginal gain of gene expression data over covariates

.gitignore

@@ -4,6 +4,9 @@
 # Large downloaded data files
 download/
 
+# Mac metadata
+.DS_Store
+
 # Python
 __pycache__/
 *.egg-info/

1.download.ipynb

@@ -59,7 +59,7 @@
     {
      "data": {
       "text/plain": [
-       "'10.6084/m9.figshare.3487685.v5'"
+       "'10.6084/m9.figshare.3487685.v6'"
       ]
      },
      "execution_count": 4,
@@ -96,10 +96,12 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "Downloading https://ndownloader.figshare.com/files/5864859 to `expression-matrix.tsv.bz2`\n",
-      "Downloading https://ndownloader.figshare.com/files/5864862 to `mutation-matrix.tsv.bz2`\n",
-      "Downloading https://ndownloader.figshare.com/files/6207135 to `samples.tsv`\n",
-      "Downloading https://ndownloader.figshare.com/files/6207138 to `covariates.tsv`\n"
+      "Downloading https://ndownloader.figshare.com/files/7311959 to `samples.tsv`\n",
+      "Downloading https://ndownloader.figshare.com/files/7311956 to `covariates.tsv`\n",
+      "Downloading https://ndownloader.figshare.com/files/7311950 to `expression-matrix.tsv.bz2`\n",
+      "Downloading https://ndownloader.figshare.com/files/7311962 to `expression-genes.tsv`\n",
+      "Downloading https://ndownloader.figshare.com/files/7311953 to `mutation-matrix.tsv.bz2`\n",
+      "Downloading https://ndownloader.figshare.com/files/7311965 to `mutation-genes.tsv`\n"
      ]
     }
    ],

explore/confounding/confounding.ipynb

@@ -668,7 +668,7 @@
  "metadata": {
   "anaconda-cloud": {},
   "kernelspec": {
-   "display_name": "Python [default]",
+   "display_name": "Python 3",
    "language": "python",
    "name": "python3"
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