Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/scsemi_cv_20261002/pooled/limma/jobs.csv

@@ -0,0 +1,23 @@
+job,offset,n_samples,is_case,filter
+obs|T cell|nonzero,0,33,110000111100001000111100110011111,nonzero
+obs|T cell|filterByExpr,0,33,110000111100001000111100110011111,filterByExpr
+obs|B cell|nonzero,189816,33,110000111100001000111100110011111,nonzero
+obs|B cell|filterByExpr,189816,33,110000111100001000111100110011111,filterByExpr
+obs|Monocyte|nonzero,379632,33,110000111100001000111100110011111,nonzero
+obs|Monocyte|filterByExpr,379632,33,110000111100001000111100110011111,filterByExpr
+obs|NK cell|nonzero,569448,33,110000111100001000111100110011111,nonzero
+obs|NK cell|filterByExpr,569448,33,110000111100001000111100110011111,filterByExpr
+obs|DC|nonzero,759264,31,1100001111000010001111001100111,nonzero
+obs|DC|filterByExpr,759264,31,1100001111000010001111001100111,filterByExpr
+gen:scsemi__raw|T cell|nonzero,937576,33,110000111100001000111100110011111,nonzero
+gen:scsemi__raw|T cell|filterByExpr,937576,33,110000111100001000111100110011111,filterByExpr
+gen:scsemi__raw|B cell|nonzero,1127392,32,11000011110000100111100110011111,nonzero
+gen:scsemi__raw|B cell|filterByExpr,1127392,32,11000011110000100111100110011111,filterByExpr
+gen:scsemi__raw|Monocyte|nonzero,1311456,33,110000111100001000111100110011111,nonzero
+gen:scsemi__raw|Monocyte|filterByExpr,1311456,33,110000111100001000111100110011111,filterByExpr
+gen:scsemi__raw|NK cell|nonzero,1501272,32,11000011110000100111100110011111,nonzero
+gen:scsemi__raw|NK cell|filterByExpr,1501272,32,11000011110000100111100110011111,filterByExpr
+gen:scsemi__raw|DC|nonzero,1685336,31,1100001111000010011110010011111,nonzero
+gen:scsemi__raw|DC|filterByExpr,1685336,31,1100001111000010011110010011111,filterByExpr
+bcast:a13338f530600178|nonzero,1863648,33,110000111100001000111100110011111,nonzero
+bcast:a13338f530600178|filterByExpr,1863648,33,110000111100001000111100110011111,filterByExpr

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/scsemi_cv_20261002/pooled/limma/limma_status.csv

@@ -0,0 +1,23 @@
+"job","status","n_tested","n_sig_fdr05","seconds"
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+"obs|T cell|filterByExpr","ok",3449,416,0.206
+"obs|B cell|nonzero","ok",5418,199,0.293
+"obs|B cell|filterByExpr","ok",1549,191,0.08
+"obs|Monocyte|nonzero","ok",5699,479,0.292
+"obs|Monocyte|filterByExpr","ok",2984,488,0.17
+"obs|NK cell|nonzero","ok",5516,223,0.355
+"obs|NK cell|filterByExpr","ok",2630,207,0.148
+"obs|DC|nonzero","ok",5168,1813,0.229
+"obs|DC|filterByExpr","ok",925,174,0.05
+"gen:scsemi__raw|T cell|nonzero","ok",2360,871,0.108
+"gen:scsemi__raw|T cell|filterByExpr","ok",281,0,0.031
+"gen:scsemi__raw|B cell|nonzero","ok",1011,0,0.058
+"gen:scsemi__raw|B cell|filterByExpr","ok",146,0,0.018
+"gen:scsemi__raw|Monocyte|nonzero","ok",1260,28,0.077
+"gen:scsemi__raw|Monocyte|filterByExpr","ok",259,14,0.025
+"gen:scsemi__raw|NK cell|nonzero","ok",1734,1,0.158
+"gen:scsemi__raw|NK cell|filterByExpr","ok",236,0,0.022
+"gen:scsemi__raw|DC|nonzero","ok",718,0,0.045
+"gen:scsemi__raw|DC|filterByExpr","ok",175,1,0.018
+"bcast:a13338f530600178|nonzero","ok",5541,53,0.304
+"bcast:a13338f530600178|filterByExpr","ok",3794,55,0.175

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/scsemi_cv_20261002/pooled/limma/versions.txt

@@ -0,0 +1,3 @@
+R version 4.5.2 (2025-10-31)
+limma 3.66.0
+edgeR 4.8.1

paper-releases/pbisc-diffusion/updates/20261005T133325Z-deck-scratch-samepairs-tracking/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/scsemi_cv_20261002/pooled/manifest.json

@@ -0,0 +1,262 @@
+{
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+ "written_utc": "2026-10-05T13:21:28.768580+00:00",
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+  "--dataset",
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+  "--arms",
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+  "N035_TOL",
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+ "n_samples": 33,
+ "contrast": {
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+ "calls": {
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+   "arms": [
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+  "sha256": "4f5eb8c8389ef1308ce3ec44be8be024cedb97de37351d109d9070c818df5a9e"
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+   "condition_key": "bcast:a13338f530600178",
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+   "label": "scSemiProfiler, all training pairs (5-fold CV)",
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+ "params": {
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+}