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Chioma paperspace #3

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Chioma paperspace #3

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b4e43be
add download folder
rando2 Jun 25, 2024
b0d59fc
Tried running components-analysis.sh
rando2 Jun 26, 2024
4de69a3
size deprecated; switched to linewidth
rando2 Jun 26, 2024
496fe9e
non-empty tsv files in 4./results
rando2 Jun 26, 2024
59e7f49
fix converted name in R utilities
rando2 Jun 26, 2024
c03f565
updated modules 4, 5, 6 in paperspace
rando2 Jun 28, 2024
00db4ae
remove files added accidentally
rando2 Jun 28, 2024
df612b8
processing grein
rando2 Jul 1, 2024
f76f1a6
test
rando2 Jul 1, 2024
eb4c742
attempt to save grein data
rando2 Jul 2, 2024
c3aa353
download and process grein
rando2 Jul 3, 2024
678bb86
save description of GREIN data set
rando2 Jul 5, 2024
442e83c
modified description
rando2 Jul 8, 2024
641ac16
save count_matrix
rando2 Jul 8, 2024
d4a3083
add micromamba env specifications
rando2 Jul 8, 2024
838ae0f
modified 1D
rando2 Jul 9, 2024
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2 changes: 2 additions & 0 deletions .gitattributes
100644 → 100755
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3.build-hetnets/results/interpret_node_degrees.xlsx filter=lfs diff=lfs merge=lfs -text
*.bz2 filter=lfs diff=lfs merge=lfs -text
*.gz filter=lfs diff=lfs merge=lfs -text
*.tsv filter=lfs diff=lfs merge=lfs -text
0.expression-download/download/count_matrix.tsv filter=lfs diff=lfs merge=lfs -text
1 change: 0 additions & 1 deletion .gitignore
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Expand Up @@ -4,6 +4,5 @@ __pycache__
.ipynb_checkpoints/
*msigdb.v6.1.symbols.gmt
*msigdb.v6.1.entrez.gmt
0.expression-download/download
.DS_Store
*.svg
Empty file modified 0.expression-download/1A.download-pancanatlas-data.ipynb
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6 changes: 3 additions & 3 deletions 0.expression-download/1B.download-target-data.ipynb
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Expand Up @@ -174,9 +174,9 @@
],
"metadata": {
"kernelspec": {
"display_name": "Python [conda env:biobombe]",
"display_name": "Python 3 (ipykernel)",
"language": "python",
"name": "conda-env-biobombe-py"
"name": "python3"
},
"language_info": {
"codemirror_mode": {
Expand All @@ -188,7 +188,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.6.7"
"version": "3.10.12"
}
},
"nbformat": 4,
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6 changes: 3 additions & 3 deletions 0.expression-download/1C.download-gtex-phenotype-data.ipynb
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Expand Up @@ -120,9 +120,9 @@
],
"metadata": {
"kernelspec": {
"display_name": "Python [conda env:biobombe]",
"display_name": "Python 3 (ipykernel)",
"language": "python",
"name": "conda-env-biobombe-py"
"name": "python3"
},
"language_info": {
"codemirror_mode": {
Expand All @@ -134,7 +134,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.6.7"
"version": "3.10.12"
}
},
"nbformat": 4,
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