Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/197ad090c38e5d4f/headline.csv +2 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/44510c9831900b92/score.json +61 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/86396cc5435370a1/summary.json +759 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/9dace6bca29e7c15/support.json +254 -0
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/197ad090c38e5d4f/headline.csv
ADDED
|
@@ -0,0 +1,2 @@
|
|
|
|
|
|
|
|
|
|
| 1 |
+
dataset,design,unit,arm,label,role,condition,pearson_r,spearman_r,partial_r,broadcast_pearson_r,broadcast_spearman_r,splithalf_r_AB,splithalf_r_AB_sd,splithalf_spearman_AB,sb_reliability,noise_free_ceiling,r_generated_vs_halfB,r_broadcast_vs_halfB,welch_top50,welch_top50_max,welch_top50_chance,welch_top50_broadcast,welch_top50_broadcast_chance,welch_n_sig_obs,welch_n_sig_gen,welch_n_sig_broadcast_per_type,welch_types_scored,limma_top50,limma_top50_max,limma_top50_chance,limma_top50_broadcast,limma_top50_broadcast_chance,limma_n_sig_obs,limma_n_sig_gen,limma_n_sig_broadcast_per_type,limma_types_scored,limma_fbe_top50,limma_fbe_top50_max,limma_fbe_top50_chance,limma_fbe_top50_broadcast,limma_fbe_top50_broadcast_chance,limma_fbe_n_sig_obs,limma_fbe_n_sig_gen,limma_fbe_n_sig_broadcast_per_type,limma_fbe_types_scored,cat50,cat50_chance,cat100,cat100_chance,rbo,rbo_up_down,cat_types,broadcast_cat50,broadcast_cat50_chance,broadcast_cat100,broadcast_cat100_chance,broadcast_rbo,broadcast_rbo_up_down,broadcast_cat_types,repro_pass
|
| 2 |
+
giroux2022,scored,strict,lora,lora,other,test_raw.npz@f04c5725,0.2093774950877274,0.11317179891383522,0.10851169300130305,0.4709654147613206,0.35580101454568397,0.8779127648861704,0.0015242575785035046,0.7640912590762394,0.9337152499913626,0.9660956301191179,0.20405660463688977,0.45678029574592377,0,3,0.0,0,0.0,3,0,0,5,0,91,0.07521105141980046,4,0.07369766757742145,91,4,4,5,0,92,0.0,4,0.09093538251237761,106,0,3,5,0.028000000000000004,0.008511620987526256,0.034,0.017023241975052512,0.017225079261606796,0.03516707616103952,5,0.12800000000000003,0.005075658777947857,0.13200000000000003,0.010151317555895715,0.1529544670733114,0.1221131460927288,5,True
|
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/44510c9831900b92/score.json
ADDED
|
@@ -0,0 +1,61 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"state": "completed",
|
| 3 |
+
"stage": "score",
|
| 4 |
+
"at": "2026-10-15T11:42:32.995560+00:00",
|
| 5 |
+
"outputs": [
|
| 6 |
+
{
|
| 7 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/score/arms/lora/generated_cells.parquet",
|
| 8 |
+
"sha256": "b441ea1cbfee5d6acfa411983e9801c5df4944b3d281294a13efbc8df6d341f2",
|
| 9 |
+
"bytes": 276586
|
| 10 |
+
},
|
| 11 |
+
{
|
| 12 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/score/arms/lora/labels/labels.manifest.json",
|
| 13 |
+
"sha256": "18b57eaa18931efdaa3bc201f103783e70128fb89e8beb9feb7fd84e003d56af",
|
| 14 |
+
"bytes": 5055
|
| 15 |
+
},
|
| 16 |
+
{
|
| 17 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/score/arms/lora/labels/labels.parquet",
|
| 18 |
+
"sha256": "cd8bf7982ddf0c7fc76b4bed52a3f99a52fbcd527195b1b05c903c239f779517",
|
| 19 |
+
"bytes": 758717
|
| 20 |
+
},
|
| 21 |
+
{
|
| 22 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/score/per_donor.csv",
|
| 23 |
+
"sha256": "12e203323e12dde1eae6181f138320651a4ffaaa18ceb86491ab877c62c6bde0",
|
| 24 |
+
"bytes": 8538
|
| 25 |
+
},
|
| 26 |
+
{
|
| 27 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/score/summary.json",
|
| 28 |
+
"sha256": "c5b9b56eea929032516e5bfd8f758da95b3c6ac5ec0ec1df44e8a7dce1ca104a",
|
| 29 |
+
"bytes": 8508
|
| 30 |
+
},
|
| 31 |
+
{
|
| 32 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/x1_priority_completion_20261015/evaluation/units/immicro/healthy/fold2/n10/lora/scoring_support.json",
|
| 33 |
+
"sha256": "22deb65c37354d3a0dabd54f6ab3ab62cad718ea888c4997fc74cf8b541068a5",
|
| 34 |
+
"bytes": 2080
|
| 35 |
+
}
|
| 36 |
+
],
|
| 37 |
+
"support_sha256": "6b42beb22dbd81bfe90a640c7061888be83ef668d4ba6fbbe7943e5a1b3d7a33",
|
| 38 |
+
"binding": {
|
| 39 |
+
"arm": "lora",
|
| 40 |
+
"npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold2/n10/lora.npz",
|
| 41 |
+
"npz_sha256": "2b40d370e9a4ea07a0fb164cb73f79a35443cc2d92e9200fc43a1cb95d897a51",
|
| 42 |
+
"receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold2/n10/lora.log",
|
| 43 |
+
"receipt_sha256": "59024565f7155d92267398159d744c10ad6b51a54b74998ab83395c4ccfbfa0c",
|
| 44 |
+
"source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/runs/immicro/healthy/fold2/n10/lora/RUN.json",
|
| 45 |
+
"source_binding_sha256": "4ce2a47a85904cb2cf966fdf5cfd3dc0789d426dc2450b40eb1c47bc4612a3c7",
|
| 46 |
+
"condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold2/n10/test_raw.npz",
|
| 47 |
+
"condition_sha256": "35792517469285bed0fd17595441952e8f1880f63022e10db66e74dc36cd585f",
|
| 48 |
+
"checkpoint_sha256": "35af617f08f2e299096d799a6e91be2f9a3e3c0fb47ead534f51f99babe9a58b",
|
| 49 |
+
"support_sha256": "6b42beb22dbd81bfe90a640c7061888be83ef668d4ba6fbbe7943e5a1b3d7a33"
|
| 50 |
+
},
|
| 51 |
+
"reuse": {
|
| 52 |
+
"source_summary": {
|
| 53 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/all_width_results_20261015/immicro/healthy/fold2/n10/score/summary.json",
|
| 54 |
+
"sha256": "bfa20c2cef40cac1a3306c6029ee5e10940840b0a407892781fbd5c95b1298e0",
|
| 55 |
+
"bytes": 7677
|
| 56 |
+
},
|
| 57 |
+
"source_arm": "lora",
|
| 58 |
+
"validated_support_sha256": "6b42beb22dbd81bfe90a640c7061888be83ef668d4ba6fbbe7943e5a1b3d7a33",
|
| 59 |
+
"annotation_reexecuted": false
|
| 60 |
+
}
|
| 61 |
+
}
|
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/86396cc5435370a1/summary.json
ADDED
|
@@ -0,0 +1,759 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"schema": "paired_ft_scores.v1",
|
| 3 |
+
"dataset": "giroux2022",
|
| 4 |
+
"written_utc": "2026-10-15T06:52:38.744721+00:00",
|
| 5 |
+
"command": [
|
| 6 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py",
|
| 7 |
+
"--dataset",
|
| 8 |
+
"giroux2022",
|
| 9 |
+
"--out",
|
| 10 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/giroux_width_comparison_20261015/draw2/score",
|
| 11 |
+
"--arm",
|
| 12 |
+
"lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/giroux2022/disease/draw2/lora.npz",
|
| 13 |
+
"--condition",
|
| 14 |
+
"lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/giroux2022/disease/draw2/test_raw.npz",
|
| 15 |
+
"--donors",
|
| 16 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/giroux_width_comparison_20261015/draw2/test_samples.txt",
|
| 17 |
+
"--threads",
|
| 18 |
+
"2",
|
| 19 |
+
"--case-groups",
|
| 20 |
+
"severe",
|
| 21 |
+
"--control-groups",
|
| 22 |
+
"mild",
|
| 23 |
+
"--exclude-genes",
|
| 24 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/sex_linked_genes/sex_linked_genes_exclude.csv"
|
| 25 |
+
],
|
| 26 |
+
"arms": [
|
| 27 |
+
"lora"
|
| 28 |
+
],
|
| 29 |
+
"donors": [
|
| 30 |
+
"7085CA_d0",
|
| 31 |
+
"7085CA_d7",
|
| 32 |
+
"7085CA_d14",
|
| 33 |
+
"2AD75E_d0",
|
| 34 |
+
"2AD75E_d7",
|
| 35 |
+
"2AD75E_d14",
|
| 36 |
+
"82CCF5_d0",
|
| 37 |
+
"82CCF5_d7",
|
| 38 |
+
"82CCF5_d14",
|
| 39 |
+
"0BF51C_d0",
|
| 40 |
+
"0BF51C_d7",
|
| 41 |
+
"0BF51C_d14"
|
| 42 |
+
],
|
| 43 |
+
"n_donors": 12,
|
| 44 |
+
"reference": {
|
| 45 |
+
"cache": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/giroux2022",
|
| 46 |
+
"reference_sha256": "dd0152f7bde41da80e1c71dabf54ee561982f36dc99a336b65fca419880a1593",
|
| 47 |
+
"features_sha256": "fb41b91617e3ff786d5153c4dc7869d66191ca5947ff28161d24215a24f819e5",
|
| 48 |
+
"n_r1_cells": 1800,
|
| 49 |
+
"pca": {
|
| 50 |
+
"n_components": 50,
|
| 51 |
+
"explained_variance_ratio_sum": 0.26048365235328674,
|
| 52 |
+
"n_fit_cells": 1800
|
| 53 |
+
},
|
| 54 |
+
"r2_control": {
|
| 55 |
+
"precision": 0.9988888888888889,
|
| 56 |
+
"coverage": 1.0,
|
| 57 |
+
"density": 4.929388888888889,
|
| 58 |
+
"n_query": 1800,
|
| 59 |
+
"depth_matched": {
|
| 60 |
+
"precision": 0.9994444444444445,
|
| 61 |
+
"coverage": 1.0,
|
| 62 |
+
"density": 4.851277777777778
|
| 63 |
+
}
|
| 64 |
+
},
|
| 65 |
+
"observed_l1_loo_null_mean": 0.36588315006285926
|
| 66 |
+
},
|
| 67 |
+
"contrast_definition": {
|
| 68 |
+
"enabled": true,
|
| 69 |
+
"rule": "explicit --case-groups / --control-groups",
|
| 70 |
+
"group_source": "features groups",
|
| 71 |
+
"case_groups": [
|
| 72 |
+
"severe"
|
| 73 |
+
],
|
| 74 |
+
"control_groups": [
|
| 75 |
+
"mild"
|
| 76 |
+
],
|
| 77 |
+
"n_case_donors": 6,
|
| 78 |
+
"n_control_donors": 6,
|
| 79 |
+
"n_donors_in_neither": 0,
|
| 80 |
+
"case": [
|
| 81 |
+
false,
|
| 82 |
+
false,
|
| 83 |
+
false,
|
| 84 |
+
false,
|
| 85 |
+
false,
|
| 86 |
+
false,
|
| 87 |
+
true,
|
| 88 |
+
true,
|
| 89 |
+
true,
|
| 90 |
+
true,
|
| 91 |
+
true,
|
| 92 |
+
true
|
| 93 |
+
],
|
| 94 |
+
"ctrl": [
|
| 95 |
+
true,
|
| 96 |
+
true,
|
| 97 |
+
true,
|
| 98 |
+
true,
|
| 99 |
+
true,
|
| 100 |
+
true,
|
| 101 |
+
false,
|
| 102 |
+
false,
|
| 103 |
+
false,
|
| 104 |
+
false,
|
| 105 |
+
false,
|
| 106 |
+
false
|
| 107 |
+
],
|
| 108 |
+
"groups": [
|
| 109 |
+
"mild",
|
| 110 |
+
"mild",
|
| 111 |
+
"mild",
|
| 112 |
+
"mild",
|
| 113 |
+
"mild",
|
| 114 |
+
"mild",
|
| 115 |
+
"severe",
|
| 116 |
+
"severe",
|
| 117 |
+
"severe",
|
| 118 |
+
"severe",
|
| 119 |
+
"severe",
|
| 120 |
+
"severe"
|
| 121 |
+
]
|
| 122 |
+
},
|
| 123 |
+
"deg_definition": {
|
| 124 |
+
"enabled": true,
|
| 125 |
+
"score": "top-50 DEG overlap per cell type (benchmark total_top50_overlap, Welch backend)",
|
| 126 |
+
"source": "/home/sj_server_1/PBISC/immun-pbmc-fm/bulk2sc-paper/scripts/evaluate_generated_vs_truth.py",
|
| 127 |
+
"functions": [
|
| 128 |
+
"welch_bh_deg",
|
| 129 |
+
"top_deg_genes",
|
| 130 |
+
"jaccard"
|
| 131 |
+
],
|
| 132 |
+
"reproduces": "utility_studies_final6k_20260925/sle top-50 DEG 81 (1,006 genes) / 84 (2,279 genes) = sum over the six gated types of top50_overlap_count",
|
| 133 |
+
"top_n": 50,
|
| 134 |
+
"fdr": 0.05,
|
| 135 |
+
"n_genes": 5498,
|
| 136 |
+
"types": [
|
| 137 |
+
"T cell",
|
| 138 |
+
"B cell",
|
| 139 |
+
"Monocyte",
|
| 140 |
+
"NK cell",
|
| 141 |
+
"DC"
|
| 142 |
+
],
|
| 143 |
+
"aggregates_source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/giroux2022/deg_reference.npz",
|
| 144 |
+
"aggregates_sha256": "412c44bba7481b0b851c3b12e695f1b7ff662163e1f7849d3a64359dfce6d50e",
|
| 145 |
+
"aggregates_note": null,
|
| 146 |
+
"types_not_scored_observed": [],
|
| 147 |
+
"observed": {
|
| 148 |
+
"T cell": {
|
| 149 |
+
"n_significant": 26,
|
| 150 |
+
"n_tested": 5225,
|
| 151 |
+
"n_case_donors": 6,
|
| 152 |
+
"n_control_donors": 6,
|
| 153 |
+
"n_cells": 67243,
|
| 154 |
+
"top_list_size": 26
|
| 155 |
+
},
|
| 156 |
+
"B cell": {
|
| 157 |
+
"n_significant": 27,
|
| 158 |
+
"n_tested": 4949,
|
| 159 |
+
"n_case_donors": 6,
|
| 160 |
+
"n_control_donors": 6,
|
| 161 |
+
"n_cells": 10555,
|
| 162 |
+
"top_list_size": 27
|
| 163 |
+
},
|
| 164 |
+
"Monocyte": {
|
| 165 |
+
"n_significant": 0,
|
| 166 |
+
"n_tested": 5151,
|
| 167 |
+
"n_case_donors": 6,
|
| 168 |
+
"n_control_donors": 6,
|
| 169 |
+
"n_cells": 25096,
|
| 170 |
+
"top_list_size": 0
|
| 171 |
+
},
|
| 172 |
+
"NK cell": {
|
| 173 |
+
"n_significant": 10,
|
| 174 |
+
"n_tested": 4963,
|
| 175 |
+
"n_case_donors": 6,
|
| 176 |
+
"n_control_donors": 6,
|
| 177 |
+
"n_cells": 16282,
|
| 178 |
+
"top_list_size": 10
|
| 179 |
+
},
|
| 180 |
+
"DC": {
|
| 181 |
+
"n_significant": 0,
|
| 182 |
+
"n_tested": 4691,
|
| 183 |
+
"n_case_donors": 6,
|
| 184 |
+
"n_control_donors": 6,
|
| 185 |
+
"n_cells": 1911,
|
| 186 |
+
"top_list_size": 0
|
| 187 |
+
}
|
| 188 |
+
},
|
| 189 |
+
"broadcast": "welch_bh_deg + top_deg_genes on the arm's condition bulk_counts (scoring genes, case|control donors), one list compared with every type's observed list (sle_broadcast.py broadcast_input_bulk); not part of the published benchmark"
|
| 190 |
+
},
|
| 191 |
+
"headline": {
|
| 192 |
+
"lora": {
|
| 193 |
+
"comp_l1": 0.32419184661665207,
|
| 194 |
+
"comp_l1_obs_loo_null": 0.36588315006285926,
|
| 195 |
+
"precision": 0.9983333333333333,
|
| 196 |
+
"coverage": 0.9405555555555556,
|
| 197 |
+
"precision_dm": 0.9938888888888889,
|
| 198 |
+
"coverage_dm": 0.9544444444444444,
|
| 199 |
+
"pb_r_median": 0.8613529017754651,
|
| 200 |
+
"pb_top1": 0.3333333333333333,
|
| 201 |
+
"mono_pct_gen": 15.716666666666665,
|
| 202 |
+
"mono_pct_obs": 20.154511386335095,
|
| 203 |
+
"median_umi_gen": 438.0,
|
| 204 |
+
"median_umi_obs": 495.0,
|
| 205 |
+
"contrast_mean_cp10k_r_gen": 0.17823549935043598,
|
| 206 |
+
"contrast_pseudobulk_log1p_cpm_r_gen": 0.07902948973476966,
|
| 207 |
+
"contrast_mean_cp10k_r_broadcast": 0.39643909018360535,
|
| 208 |
+
"contrast_pseudobulk_log1p_cpm_r_broadcast": 0.4753930725862121,
|
| 209 |
+
"deg_top50_T": 0,
|
| 210 |
+
"deg_top50_B": 0,
|
| 211 |
+
"deg_top50_Mono": 0,
|
| 212 |
+
"deg_top50_NK": 0,
|
| 213 |
+
"deg_top50_DC": 0,
|
| 214 |
+
"deg_top50_sum": 0,
|
| 215 |
+
"deg_top50_max": 63,
|
| 216 |
+
"deg_top50_sum_4type": 0,
|
| 217 |
+
"deg_top50_sum_broadcast": 0,
|
| 218 |
+
"seconds": 4.8
|
| 219 |
+
}
|
| 220 |
+
},
|
| 221 |
+
"per_arm": {
|
| 222 |
+
"lora": {
|
| 223 |
+
"arm": "lora",
|
| 224 |
+
"npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/giroux2022/disease/draw2/lora.npz",
|
| 225 |
+
"npz_sha256": "8d63ed804152bd4b19bf2a6910b247960df05da77474855cc76aeb87d0bf7bbc",
|
| 226 |
+
"receipt_verified": true,
|
| 227 |
+
"generation": {
|
| 228 |
+
"checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/runs/giroux2022/disease/draw2/lora/checkpoint_ft.pt",
|
| 229 |
+
"checkpoint_sha256": "0a84ab6c8c78762ba3cca12894bd394d946d48b130e984793f0f01ad6ef6971d",
|
| 230 |
+
"input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/giroux2022/disease/draw2/test_raw.npz",
|
| 231 |
+
"input_condition_sha256": "fedb8e8039576499367bfec5479e15b4bac720126d8c5d7412d1d12f85531c28",
|
| 232 |
+
"seed": 20260928,
|
| 233 |
+
"steps": 50,
|
| 234 |
+
"support_readout": "bernoulli",
|
| 235 |
+
"weights": "ema"
|
| 236 |
+
},
|
| 237 |
+
"condition_for_broadcast": {
|
| 238 |
+
"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/giroux2022/disease/draw2/test_raw.npz",
|
| 239 |
+
"sha256": "fedb8e8039576499367bfec5479e15b4bac720126d8c5d7412d1d12f85531c28"
|
| 240 |
+
},
|
| 241 |
+
"poisson": {
|
| 242 |
+
"seed": 20260916,
|
| 243 |
+
"rule": "whole NPZ, rows in NPZ order",
|
| 244 |
+
"nnz_whole_npz": 4219649,
|
| 245 |
+
"median_library_whole_npz_panel": 1353.0,
|
| 246 |
+
"n_rows_whole_npz": 18000
|
| 247 |
+
},
|
| 248 |
+
"annotation": {
|
| 249 |
+
"model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
|
| 250 |
+
"zero_padded_model_genes": 0,
|
| 251 |
+
"label_counts": {
|
| 252 |
+
"T cell": 11982,
|
| 253 |
+
"Monocyte": 2829,
|
| 254 |
+
"NK cell": 1172,
|
| 255 |
+
"B cell": 890,
|
| 256 |
+
"Other": 820,
|
| 257 |
+
"DC": 307
|
| 258 |
+
},
|
| 259 |
+
"mean_l2_max_prob": 0.8815405629318621,
|
| 260 |
+
"predict_seconds": 2.9
|
| 261 |
+
},
|
| 262 |
+
"n_donors": 12,
|
| 263 |
+
"n_generated_cells": 18000,
|
| 264 |
+
"composition": {
|
| 265 |
+
"l1_mean": 0.32419184661665207,
|
| 266 |
+
"l1_median": 0.2856208308235338,
|
| 267 |
+
"l1_obs_loo_null_mean": 0.36588315006285926,
|
| 268 |
+
"l1_generated_loo_mean_vs_observed_mean": 0.3629806603992483,
|
| 269 |
+
"composition_top1": 0.08333333333333333,
|
| 270 |
+
"mean_fraction_generated": {
|
| 271 |
+
"T cell": 0.665667,
|
| 272 |
+
"B cell": 0.049444,
|
| 273 |
+
"Monocyte": 0.157167,
|
| 274 |
+
"NK cell": 0.065111,
|
| 275 |
+
"DC": 0.017056,
|
| 276 |
+
"Other": 0.045556
|
| 277 |
+
},
|
| 278 |
+
"mean_fraction_observed": {
|
| 279 |
+
"T cell": 0.53475,
|
| 280 |
+
"B cell": 0.081149,
|
| 281 |
+
"Monocyte": 0.201545,
|
| 282 |
+
"NK cell": 0.128628,
|
| 283 |
+
"DC": 0.015056,
|
| 284 |
+
"Other": 0.038872
|
| 285 |
+
}
|
| 286 |
+
},
|
| 287 |
+
"pseudobulk": {
|
| 288 |
+
"n_genes": 5563,
|
| 289 |
+
"r_median": 0.8613529017754651,
|
| 290 |
+
"r_mean": 0.8633332400528023,
|
| 291 |
+
"top1": 0.3333333333333333,
|
| 292 |
+
"n_top1": 4,
|
| 293 |
+
"own_rank_median": 3.0,
|
| 294 |
+
"chance_top1": 0.08333333333333333
|
| 295 |
+
},
|
| 296 |
+
"precision_coverage": {
|
| 297 |
+
"precision": 0.9983333333333333,
|
| 298 |
+
"coverage": 0.9405555555555556,
|
| 299 |
+
"density": 4.402111111111111,
|
| 300 |
+
"n_query": 1800,
|
| 301 |
+
"n_reference": 1800
|
| 302 |
+
},
|
| 303 |
+
"precision_coverage_depth_matched": {
|
| 304 |
+
"precision": 0.9938888888888889,
|
| 305 |
+
"coverage": 0.9544444444444444,
|
| 306 |
+
"density": 2.302833333333333,
|
| 307 |
+
"detected_median_before": {
|
| 308 |
+
"R1": 257.0,
|
| 309 |
+
"Q": 158.0
|
| 310 |
+
},
|
| 311 |
+
"detected_median_after": {
|
| 312 |
+
"R1": 158.0,
|
| 313 |
+
"Q": 158.0
|
| 314 |
+
}
|
| 315 |
+
},
|
| 316 |
+
"monocyte_pct": {
|
| 317 |
+
"generated_mean_over_donors": 15.716666666666665,
|
| 318 |
+
"observed_mean_over_donors": 20.154511386335095,
|
| 319 |
+
"generated_pooled_cells": 15.716666666666669
|
| 320 |
+
},
|
| 321 |
+
"median_umi_per_cell_scoring_genes": {
|
| 322 |
+
"generated_pooled": 438.0,
|
| 323 |
+
"observed_pooled": 495.0,
|
| 324 |
+
"generated_mean_of_donor_medians": 441.0,
|
| 325 |
+
"observed_mean_of_donor_medians": 503.3333333333333
|
| 326 |
+
},
|
| 327 |
+
"contrast": {
|
| 328 |
+
"mean_cp10k": {
|
| 329 |
+
"per_type": {
|
| 330 |
+
"T cell": {
|
| 331 |
+
"r_generated": 0.30806212595655197,
|
| 332 |
+
"r_broadcast": 0.3625775242708975,
|
| 333 |
+
"partial_r_generated_given_broadcast": 0.1961302895883202,
|
| 334 |
+
"r_generated_vs_broadcast": 0.38421475138891836,
|
| 335 |
+
"n_genes": 2872
|
| 336 |
+
},
|
| 337 |
+
"B cell": {
|
| 338 |
+
"r_generated": 0.12431387870744201,
|
| 339 |
+
"r_broadcast": 0.3415650846257105,
|
| 340 |
+
"partial_r_generated_given_broadcast": 0.08368894040258096,
|
| 341 |
+
"r_generated_vs_broadcast": 0.13580681721090138,
|
| 342 |
+
"n_genes": 3000
|
| 343 |
+
},
|
| 344 |
+
"Monocyte": {
|
| 345 |
+
"r_generated": 0.21086226632712277,
|
| 346 |
+
"r_broadcast": 0.5778525672489366,
|
| 347 |
+
"partial_r_generated_given_broadcast": 0.03951403192058372,
|
| 348 |
+
"r_generated_vs_broadcast": 0.31188196120253325,
|
| 349 |
+
"n_genes": 3030
|
| 350 |
+
},
|
| 351 |
+
"NK cell": {
|
| 352 |
+
"r_generated": 0.06970372641062719,
|
| 353 |
+
"r_broadcast": 0.3037611845888768,
|
| 354 |
+
"partial_r_generated_given_broadcast": 0.01499186298176658,
|
| 355 |
+
"r_generated_vs_broadcast": 0.1832429928475508,
|
| 356 |
+
"n_genes": 2903
|
| 357 |
+
}
|
| 358 |
+
},
|
| 359 |
+
"mean_r_generated": 0.17823549935043598,
|
| 360 |
+
"mean_r_broadcast": 0.39643909018360535,
|
| 361 |
+
"mean_partial_r": 0.08358128122331286
|
| 362 |
+
},
|
| 363 |
+
"pseudobulk_log1p_cpm": {
|
| 364 |
+
"per_type": {
|
| 365 |
+
"T cell": {
|
| 366 |
+
"r_generated": 0.18452857247363613,
|
| 367 |
+
"r_broadcast": 0.48116424377694494,
|
| 368 |
+
"partial_r_generated_given_broadcast": 0.09904651429367538,
|
| 369 |
+
"r_generated_vs_broadcast": 0.20695889617134333,
|
| 370 |
+
"n_genes": 2872
|
| 371 |
+
},
|
| 372 |
+
"B cell": {
|
| 373 |
+
"r_generated": 0.06750773737053338,
|
| 374 |
+
"r_broadcast": 0.444312077425732,
|
| 375 |
+
"partial_r_generated_given_broadcast": 0.03376212384158388,
|
| 376 |
+
"r_generated_vs_broadcast": 0.08410385163145427,
|
| 377 |
+
"n_genes": 3000
|
| 378 |
+
},
|
| 379 |
+
"Monocyte": {
|
| 380 |
+
"r_generated": 0.07938286231929745,
|
| 381 |
+
"r_broadcast": 0.5873665894516398,
|
| 382 |
+
"partial_r_generated_given_broadcast": 0.0026420234021854194,
|
| 383 |
+
"r_generated_vs_broadcast": 0.13154169585881811,
|
| 384 |
+
"n_genes": 3030
|
| 385 |
+
},
|
| 386 |
+
"NK cell": {
|
| 387 |
+
"r_generated": -0.01530121322438831,
|
| 388 |
+
"r_broadcast": 0.3887293796905318,
|
| 389 |
+
"partial_r_generated_given_broadcast": -0.039482287920825636,
|
| 390 |
+
"r_generated_vs_broadcast": 0.05408038912619831,
|
| 391 |
+
"n_genes": 2903
|
| 392 |
+
}
|
| 393 |
+
},
|
| 394 |
+
"mean_r_generated": 0.07902948973476966,
|
| 395 |
+
"mean_r_broadcast": 0.4753930725862121,
|
| 396 |
+
"mean_partial_r": 0.023992093404154757
|
| 397 |
+
}
|
| 398 |
+
},
|
| 399 |
+
"deg_top50": {
|
| 400 |
+
"types_scored": [
|
| 401 |
+
"T cell",
|
| 402 |
+
"B cell",
|
| 403 |
+
"Monocyte",
|
| 404 |
+
"NK cell",
|
| 405 |
+
"DC"
|
| 406 |
+
],
|
| 407 |
+
"types_not_scored": {},
|
| 408 |
+
"per_type": {
|
| 409 |
+
"T cell": {
|
| 410 |
+
"deg_scored": true,
|
| 411 |
+
"top50_overlap": 0,
|
| 412 |
+
"top50_jaccard": 0.0,
|
| 413 |
+
"obs_top_list_size": 26,
|
| 414 |
+
"gen_top_list_size": 0,
|
| 415 |
+
"top50_overlap_broadcast": 0,
|
| 416 |
+
"top50_jaccard_broadcast": 0.0,
|
| 417 |
+
"n_cells_obs": 67243,
|
| 418 |
+
"n_cells_gen": 11982
|
| 419 |
+
},
|
| 420 |
+
"B cell": {
|
| 421 |
+
"deg_scored": true,
|
| 422 |
+
"top50_overlap": 0,
|
| 423 |
+
"top50_jaccard": 0.0,
|
| 424 |
+
"obs_top_list_size": 27,
|
| 425 |
+
"gen_top_list_size": 0,
|
| 426 |
+
"top50_overlap_broadcast": 0,
|
| 427 |
+
"top50_jaccard_broadcast": 0.0,
|
| 428 |
+
"n_cells_obs": 10555,
|
| 429 |
+
"n_cells_gen": 890
|
| 430 |
+
},
|
| 431 |
+
"Monocyte": {
|
| 432 |
+
"deg_scored": true,
|
| 433 |
+
"top50_overlap": 0,
|
| 434 |
+
"top50_jaccard": null,
|
| 435 |
+
"obs_top_list_size": 0,
|
| 436 |
+
"gen_top_list_size": 0,
|
| 437 |
+
"top50_overlap_broadcast": 0,
|
| 438 |
+
"top50_jaccard_broadcast": null,
|
| 439 |
+
"n_cells_obs": 25096,
|
| 440 |
+
"n_cells_gen": 2829
|
| 441 |
+
},
|
| 442 |
+
"NK cell": {
|
| 443 |
+
"deg_scored": true,
|
| 444 |
+
"top50_overlap": 0,
|
| 445 |
+
"top50_jaccard": 0.0,
|
| 446 |
+
"obs_top_list_size": 10,
|
| 447 |
+
"gen_top_list_size": 0,
|
| 448 |
+
"top50_overlap_broadcast": 0,
|
| 449 |
+
"top50_jaccard_broadcast": 0.0,
|
| 450 |
+
"n_cells_obs": 16282,
|
| 451 |
+
"n_cells_gen": 1172
|
| 452 |
+
},
|
| 453 |
+
"DC": {
|
| 454 |
+
"deg_scored": true,
|
| 455 |
+
"top50_overlap": 0,
|
| 456 |
+
"top50_jaccard": null,
|
| 457 |
+
"obs_top_list_size": 0,
|
| 458 |
+
"gen_top_list_size": 0,
|
| 459 |
+
"top50_overlap_broadcast": 0,
|
| 460 |
+
"top50_jaccard_broadcast": null,
|
| 461 |
+
"n_cells_obs": 1911,
|
| 462 |
+
"n_cells_gen": 307
|
| 463 |
+
}
|
| 464 |
+
},
|
| 465 |
+
"sum": 0,
|
| 466 |
+
"sum_4type": 0,
|
| 467 |
+
"max": 63,
|
| 468 |
+
"mean": 0.0,
|
| 469 |
+
"sum_broadcast": 0,
|
| 470 |
+
"sum_broadcast_4type": 0,
|
| 471 |
+
"broadcast_n_significant": 0,
|
| 472 |
+
"seconds": 0.03
|
| 473 |
+
},
|
| 474 |
+
"seconds": 4.8
|
| 475 |
+
}
|
| 476 |
+
},
|
| 477 |
+
"code_sha256": {
|
| 478 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
|
| 479 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
|
| 480 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/tools/stage_b_embed.py": "d056cfdf38fb0e5f478756f370174e993b75d0c973c48e02e21749175a4ca2da",
|
| 481 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/bulk2sc-paper/scripts/evaluate_generated_vs_truth.py": "48b12d794782b840838853e93e0fc55fab00532c4b3698f4588e926b985d2881",
|
| 482 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/tools/immicro_common.py": "c5c30e917148cc5e664e91ea30c11bbdff9b6d1f53a3e0a13e16b1917eff37e9",
|
| 483 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/predict_scanvi.py": "482ee5dcf4d72b54bc36cbb6dcff62e5030bc7afc46cb5fb01eca73a82ee45a5",
|
| 484 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/poisson_readout.py": "8bfa080942fbcdc89ae23b276524a1a83266fb8cbc56b9af279e50f82e6cde38"
|
| 485 |
+
},
|
| 486 |
+
"seconds": 5.7,
|
| 487 |
+
"gene_exclusion": {
|
| 488 |
+
"file": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/sex_linked_genes/sex_linked_genes_exclude.csv",
|
| 489 |
+
"sha256": "e3a0f3f225d94d7c193d94ea020b1ab097fa657c0601fce4301b9a09a9c243de",
|
| 490 |
+
"n_listed": 196,
|
| 491 |
+
"n_scoring_genes": 5563,
|
| 492 |
+
"n_dropped_from_scoring_genes": 65,
|
| 493 |
+
"n_scoring_genes_kept": 5498,
|
| 494 |
+
"dropped": [
|
| 495 |
+
{
|
| 496 |
+
"gene_id": "ENSG00000124343",
|
| 497 |
+
"symbol": "XG"
|
| 498 |
+
},
|
| 499 |
+
{
|
| 500 |
+
"gene_id": "ENSG00000183943",
|
| 501 |
+
"symbol": "PRKX"
|
| 502 |
+
},
|
| 503 |
+
{
|
| 504 |
+
"gene_id": "ENSG00000146938",
|
| 505 |
+
"symbol": "NLGN4X"
|
| 506 |
+
},
|
| 507 |
+
{
|
| 508 |
+
"gene_id": "ENSG00000130021",
|
| 509 |
+
"symbol": "PUDP"
|
| 510 |
+
},
|
| 511 |
+
{
|
| 512 |
+
"gene_id": "ENSG00000101846",
|
| 513 |
+
"symbol": "STS"
|
| 514 |
+
},
|
| 515 |
+
{
|
| 516 |
+
"gene_id": "ENSG00000011201",
|
| 517 |
+
"symbol": "ANOS1"
|
| 518 |
+
},
|
| 519 |
+
{
|
| 520 |
+
"gene_id": "ENSG00000177138",
|
| 521 |
+
"symbol": "FAM9B"
|
| 522 |
+
},
|
| 523 |
+
{
|
| 524 |
+
"gene_id": "ENSG00000101849",
|
| 525 |
+
"symbol": "TBL1X"
|
| 526 |
+
},
|
| 527 |
+
{
|
| 528 |
+
"gene_id": "ENSG00000146950",
|
| 529 |
+
"symbol": "SHROOM2"
|
| 530 |
+
},
|
| 531 |
+
{
|
| 532 |
+
"gene_id": "ENSG00000182287",
|
| 533 |
+
"symbol": "AP1S2"
|
| 534 |
+
},
|
| 535 |
+
{
|
| 536 |
+
"gene_id": "ENSG00000047230",
|
| 537 |
+
"symbol": "CTPS2"
|
| 538 |
+
},
|
| 539 |
+
{
|
| 540 |
+
"gene_id": "ENSG00000086712",
|
| 541 |
+
"symbol": "TXLNG"
|
| 542 |
+
},
|
| 543 |
+
{
|
| 544 |
+
"gene_id": "ENSG00000188158",
|
| 545 |
+
"symbol": "NHS"
|
| 546 |
+
},
|
| 547 |
+
{
|
| 548 |
+
"gene_id": "ENSG00000177324",
|
| 549 |
+
"symbol": "BEND2"
|
| 550 |
+
},
|
| 551 |
+
{
|
| 552 |
+
"gene_id": "ENSG00000086717",
|
| 553 |
+
"symbol": "PPEF1"
|
| 554 |
+
},
|
| 555 |
+
{
|
| 556 |
+
"gene_id": "ENSG00000149970",
|
| 557 |
+
"symbol": "CNKSR2"
|
| 558 |
+
},
|
| 559 |
+
{
|
| 560 |
+
"gene_id": "ENSG00000102174",
|
| 561 |
+
"symbol": "PHEX"
|
| 562 |
+
},
|
| 563 |
+
{
|
| 564 |
+
"gene_id": "ENSG00000165186",
|
| 565 |
+
"symbol": "PTCHD1"
|
| 566 |
+
},
|
| 567 |
+
{
|
| 568 |
+
"gene_id": "ENSG00000169306",
|
| 569 |
+
"symbol": "IL1RAPL1"
|
| 570 |
+
},
|
| 571 |
+
{
|
| 572 |
+
"gene_id": "ENSG00000147036",
|
| 573 |
+
"symbol": "LANCL3"
|
| 574 |
+
},
|
| 575 |
+
{
|
| 576 |
+
"gene_id": "ENSG00000047597",
|
| 577 |
+
"symbol": "XK"
|
| 578 |
+
},
|
| 579 |
+
{
|
| 580 |
+
"gene_id": "ENSG00000180182",
|
| 581 |
+
"symbol": "MED14"
|
| 582 |
+
},
|
| 583 |
+
{
|
| 584 |
+
"gene_id": "ENSG00000183690",
|
| 585 |
+
"symbol": "EFHC2"
|
| 586 |
+
},
|
| 587 |
+
{
|
| 588 |
+
"gene_id": "ENSG00000147050",
|
| 589 |
+
"symbol": "KDM6A"
|
| 590 |
+
},
|
| 591 |
+
{
|
| 592 |
+
"gene_id": "ENSG00000147117",
|
| 593 |
+
"symbol": "ZNF157"
|
| 594 |
+
},
|
| 595 |
+
{
|
| 596 |
+
"gene_id": "ENSG00000102265",
|
| 597 |
+
"symbol": "TIMP1"
|
| 598 |
+
},
|
| 599 |
+
{
|
| 600 |
+
"gene_id": "ENSG00000158423",
|
| 601 |
+
"symbol": "RIBC1"
|
| 602 |
+
},
|
| 603 |
+
{
|
| 604 |
+
"gene_id": "ENSG00000155659",
|
| 605 |
+
"symbol": "VSIG4"
|
| 606 |
+
},
|
| 607 |
+
{
|
| 608 |
+
"gene_id": "ENSG00000204165",
|
| 609 |
+
"symbol": "CXorf65"
|
| 610 |
+
},
|
| 611 |
+
{
|
| 612 |
+
"gene_id": "ENSG00000204131",
|
| 613 |
+
"symbol": "NHSL2"
|
| 614 |
+
},
|
| 615 |
+
{
|
| 616 |
+
"gene_id": "ENSG00000078589",
|
| 617 |
+
"symbol": "P2RY10"
|
| 618 |
+
},
|
| 619 |
+
{
|
| 620 |
+
"gene_id": "ENSG00000147138",
|
| 621 |
+
"symbol": "GPR174"
|
| 622 |
+
},
|
| 623 |
+
{
|
| 624 |
+
"gene_id": "ENSG00000198157",
|
| 625 |
+
"symbol": "HMGN5"
|
| 626 |
+
},
|
| 627 |
+
{
|
| 628 |
+
"gene_id": "ENSG00000147180",
|
| 629 |
+
"symbol": "ZNF711"
|
| 630 |
+
},
|
| 631 |
+
{
|
| 632 |
+
"gene_id": "ENSG00000124429",
|
| 633 |
+
"symbol": "POF1B"
|
| 634 |
+
},
|
| 635 |
+
{
|
| 636 |
+
"gene_id": "ENSG00000126733",
|
| 637 |
+
"symbol": "DACH2"
|
| 638 |
+
},
|
| 639 |
+
{
|
| 640 |
+
"gene_id": "ENSG00000102290",
|
| 641 |
+
"symbol": "PCDH11X"
|
| 642 |
+
},
|
| 643 |
+
{
|
| 644 |
+
"gene_id": "ENSG00000102362",
|
| 645 |
+
"symbol": "SYTL4"
|
| 646 |
+
},
|
| 647 |
+
{
|
| 648 |
+
"gene_id": "ENSG00000182489",
|
| 649 |
+
"symbol": "XKRX"
|
| 650 |
+
},
|
| 651 |
+
{
|
| 652 |
+
"gene_id": "ENSG00000166432",
|
| 653 |
+
"symbol": "ZMAT1"
|
| 654 |
+
},
|
| 655 |
+
{
|
| 656 |
+
"gene_id": "ENSG00000189108",
|
| 657 |
+
"symbol": "IL1RAPL2"
|
| 658 |
+
},
|
| 659 |
+
{
|
| 660 |
+
"gene_id": "ENSG00000198088",
|
| 661 |
+
"symbol": "NUP62CL"
|
| 662 |
+
},
|
| 663 |
+
{
|
| 664 |
+
"gene_id": "ENSG00000147234",
|
| 665 |
+
"symbol": "FRMPD3"
|
| 666 |
+
},
|
| 667 |
+
{
|
| 668 |
+
"gene_id": "ENSG00000080561",
|
| 669 |
+
"symbol": "MID2"
|
| 670 |
+
},
|
| 671 |
+
{
|
| 672 |
+
"gene_id": "ENSG00000197565",
|
| 673 |
+
"symbol": "COL4A6"
|
| 674 |
+
},
|
| 675 |
+
{
|
| 676 |
+
"gene_id": "ENSG00000072315",
|
| 677 |
+
"symbol": "TRPC5"
|
| 678 |
+
},
|
| 679 |
+
{
|
| 680 |
+
"gene_id": "ENSG00000187823",
|
| 681 |
+
"symbol": "RTL4"
|
| 682 |
+
},
|
| 683 |
+
{
|
| 684 |
+
"gene_id": "ENSG00000125675",
|
| 685 |
+
"symbol": "GRIA3"
|
| 686 |
+
},
|
| 687 |
+
{
|
| 688 |
+
"gene_id": "ENSG00000183918",
|
| 689 |
+
"symbol": "SH2D1A"
|
| 690 |
+
},
|
| 691 |
+
{
|
| 692 |
+
"gene_id": "ENSG00000056277",
|
| 693 |
+
"symbol": "ZNF280C"
|
| 694 |
+
},
|
| 695 |
+
{
|
| 696 |
+
"gene_id": "ENSG00000171004",
|
| 697 |
+
"symbol": "HS6ST2"
|
| 698 |
+
},
|
| 699 |
+
{
|
| 700 |
+
"gene_id": "ENSG00000170965",
|
| 701 |
+
"symbol": "PLAC1"
|
| 702 |
+
},
|
| 703 |
+
{
|
| 704 |
+
"gene_id": "ENSG00000022267",
|
| 705 |
+
"symbol": "FHL1"
|
| 706 |
+
},
|
| 707 |
+
{
|
| 708 |
+
"gene_id": "ENSG00000102245",
|
| 709 |
+
"symbol": "CD40LG"
|
| 710 |
+
},
|
| 711 |
+
{
|
| 712 |
+
"gene_id": "ENSG00000129682",
|
| 713 |
+
"symbol": "FGF13"
|
| 714 |
+
},
|
| 715 |
+
{
|
| 716 |
+
"gene_id": "ENSG00000155966",
|
| 717 |
+
"symbol": "AFF2"
|
| 718 |
+
},
|
| 719 |
+
{
|
| 720 |
+
"gene_id": "ENSG00000011677",
|
| 721 |
+
"symbol": "GABRA3"
|
| 722 |
+
},
|
| 723 |
+
{
|
| 724 |
+
"gene_id": "ENSG00000183837",
|
| 725 |
+
"symbol": "PNMA3"
|
| 726 |
+
},
|
| 727 |
+
{
|
| 728 |
+
"gene_id": "ENSG00000067646",
|
| 729 |
+
"symbol": "ZFY"
|
| 730 |
+
},
|
| 731 |
+
{
|
| 732 |
+
"gene_id": "ENSG00000099715",
|
| 733 |
+
"symbol": "PCDH11Y"
|
| 734 |
+
},
|
| 735 |
+
{
|
| 736 |
+
"gene_id": "ENSG00000114374",
|
| 737 |
+
"symbol": "USP9Y"
|
| 738 |
+
},
|
| 739 |
+
{
|
| 740 |
+
"gene_id": "ENSG00000067048",
|
| 741 |
+
"symbol": "DDX3Y"
|
| 742 |
+
},
|
| 743 |
+
{
|
| 744 |
+
"gene_id": "ENSG00000183878",
|
| 745 |
+
"symbol": "UTY"
|
| 746 |
+
},
|
| 747 |
+
{
|
| 748 |
+
"gene_id": "ENSG00000165246",
|
| 749 |
+
"symbol": "NLGN4Y"
|
| 750 |
+
},
|
| 751 |
+
{
|
| 752 |
+
"gene_id": "ENSG00000012817",
|
| 753 |
+
"symbol": "KDM5D"
|
| 754 |
+
}
|
| 755 |
+
],
|
| 756 |
+
"applies_to": "group contrast (logFC r generated / broadcast / partial: dropped from each type's detected-gene set) and top-50 DEG (observed, generated and broadcast tests: columns dropped before log1p CPM, Welch and BH); all other metrics use every scoring gene"
|
| 757 |
+
},
|
| 758 |
+
"core_reused_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/recoveries/giroux_width_comparison_20261015/draw2/score"
|
| 759 |
+
}
|
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/9dace6bca29e7c15/support.json
ADDED
|
@@ -0,0 +1,254 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"schema": "pbisc.paper.strict-support.v1",
|
| 3 |
+
"cohort": "ye2026_sepsis",
|
| 4 |
+
"design": "disease_existing_draw",
|
| 5 |
+
"unit": "draw2_n5",
|
| 6 |
+
"n_pairs": 5,
|
| 7 |
+
"train_sample_ids": [
|
| 8 |
+
"PIC01",
|
| 9 |
+
"Res-S177",
|
| 10 |
+
"Skin-S74",
|
| 11 |
+
"Res-S136",
|
| 12 |
+
"Res-S77"
|
| 13 |
+
],
|
| 14 |
+
"train_donor_ids": [
|
| 15 |
+
"PIC01",
|
| 16 |
+
"Res-S177",
|
| 17 |
+
"Skin-S74",
|
| 18 |
+
"Res-S136",
|
| 19 |
+
"Res-S77"
|
| 20 |
+
],
|
| 21 |
+
"test_sample_ids": [
|
| 22 |
+
"Abd-PS04",
|
| 23 |
+
"Abd-PS05",
|
| 24 |
+
"Abd-PS07",
|
| 25 |
+
"Abd-PS19",
|
| 26 |
+
"Abd-PS20",
|
| 27 |
+
"Abd-PS23",
|
| 28 |
+
"Abd-PS27",
|
| 29 |
+
"Abd-S102",
|
| 30 |
+
"Abd-S103",
|
| 31 |
+
"Abd-S120",
|
| 32 |
+
"Abd-S123",
|
| 33 |
+
"Abd-S156",
|
| 34 |
+
"Abd-S39",
|
| 35 |
+
"Abd-S42",
|
| 36 |
+
"Abd-S47",
|
| 37 |
+
"Abd-S51",
|
| 38 |
+
"Abd-S54",
|
| 39 |
+
"Abd-S57",
|
| 40 |
+
"Abd-S66",
|
| 41 |
+
"Abd-S79",
|
| 42 |
+
"Abd-S83",
|
| 43 |
+
"Abd-S98",
|
| 44 |
+
"HC01",
|
| 45 |
+
"HC05",
|
| 46 |
+
"HC07",
|
| 47 |
+
"HC09",
|
| 48 |
+
"HC12",
|
| 49 |
+
"HC13",
|
| 50 |
+
"HC16",
|
| 51 |
+
"IC10",
|
| 52 |
+
"IC15",
|
| 53 |
+
"IC16",
|
| 54 |
+
"IC19",
|
| 55 |
+
"IC22",
|
| 56 |
+
"IC23",
|
| 57 |
+
"PHC01",
|
| 58 |
+
"PHC02",
|
| 59 |
+
"PHC03",
|
| 60 |
+
"PHC05",
|
| 61 |
+
"PIC02",
|
| 62 |
+
"PIC04",
|
| 63 |
+
"PIC05",
|
| 64 |
+
"Res-PS02",
|
| 65 |
+
"Res-PS03",
|
| 66 |
+
"Res-PS12",
|
| 67 |
+
"Res-PS16",
|
| 68 |
+
"Res-PS21",
|
| 69 |
+
"Res-PS22",
|
| 70 |
+
"Res-PS25",
|
| 71 |
+
"Res-PS26",
|
| 72 |
+
"Res-S10",
|
| 73 |
+
"Res-S125",
|
| 74 |
+
"Res-S127",
|
| 75 |
+
"Res-S139",
|
| 76 |
+
"Res-S146",
|
| 77 |
+
"Res-S149",
|
| 78 |
+
"Res-S150",
|
| 79 |
+
"Res-S164",
|
| 80 |
+
"Res-S166",
|
| 81 |
+
"Res-S174",
|
| 82 |
+
"Res-S184",
|
| 83 |
+
"Res-S19",
|
| 84 |
+
"Res-S26",
|
| 85 |
+
"Res-S40",
|
| 86 |
+
"Res-S87",
|
| 87 |
+
"Skin-S140",
|
| 88 |
+
"Skin-S142",
|
| 89 |
+
"Skin-S152",
|
| 90 |
+
"Skin-S38",
|
| 91 |
+
"Skin-S43",
|
| 92 |
+
"Skin-S46",
|
| 93 |
+
"Skin-S52",
|
| 94 |
+
"Uri-S134",
|
| 95 |
+
"Uri-S147",
|
| 96 |
+
"Uri-S157",
|
| 97 |
+
"Uri-S20",
|
| 98 |
+
"Uri-S93"
|
| 99 |
+
],
|
| 100 |
+
"test_donor_ids": [
|
| 101 |
+
"Abd-PS04",
|
| 102 |
+
"Abd-PS05",
|
| 103 |
+
"Abd-PS07",
|
| 104 |
+
"Abd-PS19",
|
| 105 |
+
"Abd-PS20",
|
| 106 |
+
"Abd-PS23",
|
| 107 |
+
"Abd-PS27",
|
| 108 |
+
"Abd-S102",
|
| 109 |
+
"Abd-S103",
|
| 110 |
+
"Abd-S120",
|
| 111 |
+
"Abd-S123",
|
| 112 |
+
"Abd-S156",
|
| 113 |
+
"Abd-S39",
|
| 114 |
+
"Abd-S42",
|
| 115 |
+
"Abd-S47",
|
| 116 |
+
"Abd-S51",
|
| 117 |
+
"Abd-S54",
|
| 118 |
+
"Abd-S57",
|
| 119 |
+
"Abd-S66",
|
| 120 |
+
"Abd-S79",
|
| 121 |
+
"Abd-S83",
|
| 122 |
+
"Abd-S98",
|
| 123 |
+
"HC01",
|
| 124 |
+
"HC05",
|
| 125 |
+
"HC07",
|
| 126 |
+
"HC09",
|
| 127 |
+
"HC12",
|
| 128 |
+
"HC13",
|
| 129 |
+
"HC16",
|
| 130 |
+
"IC10",
|
| 131 |
+
"IC15",
|
| 132 |
+
"IC16",
|
| 133 |
+
"IC19",
|
| 134 |
+
"IC22",
|
| 135 |
+
"IC23",
|
| 136 |
+
"PHC01",
|
| 137 |
+
"PHC02",
|
| 138 |
+
"PHC03",
|
| 139 |
+
"PHC05",
|
| 140 |
+
"PIC02",
|
| 141 |
+
"PIC04",
|
| 142 |
+
"PIC05",
|
| 143 |
+
"Res-PS02",
|
| 144 |
+
"Res-PS03",
|
| 145 |
+
"Res-PS12",
|
| 146 |
+
"Res-PS16",
|
| 147 |
+
"Res-PS21",
|
| 148 |
+
"Res-PS22",
|
| 149 |
+
"Res-PS25",
|
| 150 |
+
"Res-PS26",
|
| 151 |
+
"Res-S10",
|
| 152 |
+
"Res-S125",
|
| 153 |
+
"Res-S127",
|
| 154 |
+
"Res-S139",
|
| 155 |
+
"Res-S146",
|
| 156 |
+
"Res-S149",
|
| 157 |
+
"Res-S150",
|
| 158 |
+
"Res-S164",
|
| 159 |
+
"Res-S166",
|
| 160 |
+
"Res-S174",
|
| 161 |
+
"Res-S184",
|
| 162 |
+
"Res-S19",
|
| 163 |
+
"Res-S26",
|
| 164 |
+
"Res-S40",
|
| 165 |
+
"Res-S87",
|
| 166 |
+
"Skin-S140",
|
| 167 |
+
"Skin-S142",
|
| 168 |
+
"Skin-S152",
|
| 169 |
+
"Skin-S38",
|
| 170 |
+
"Skin-S43",
|
| 171 |
+
"Skin-S46",
|
| 172 |
+
"Skin-S52",
|
| 173 |
+
"Uri-S134",
|
| 174 |
+
"Uri-S147",
|
| 175 |
+
"Uri-S157",
|
| 176 |
+
"Uri-S20",
|
| 177 |
+
"Uri-S93"
|
| 178 |
+
],
|
| 179 |
+
"excluded_sample_ids": [],
|
| 180 |
+
"seed": null,
|
| 181 |
+
"selection_audit": [
|
| 182 |
+
{
|
| 183 |
+
"donor_id": "PIC01",
|
| 184 |
+
"assigned_stratum": false,
|
| 185 |
+
"selected_sample_id": "PIC01",
|
| 186 |
+
"candidates": [
|
| 187 |
+
{
|
| 188 |
+
"sample_id": "PIC01",
|
| 189 |
+
"time_value": 0.0,
|
| 190 |
+
"time_raw": "none (single sample per donor)",
|
| 191 |
+
"time_field": "timepoint",
|
| 192 |
+
"group": "ped_ICU_ctrl"
|
| 193 |
+
}
|
| 194 |
+
]
|
| 195 |
+
},
|
| 196 |
+
{
|
| 197 |
+
"donor_id": "Res-S177",
|
| 198 |
+
"assigned_stratum": true,
|
| 199 |
+
"selected_sample_id": "Res-S177",
|
| 200 |
+
"candidates": [
|
| 201 |
+
{
|
| 202 |
+
"sample_id": "Res-S177",
|
| 203 |
+
"time_value": 0.0,
|
| 204 |
+
"time_raw": "none (single sample per donor)",
|
| 205 |
+
"time_field": "timepoint",
|
| 206 |
+
"group": "adult_sepsis"
|
| 207 |
+
}
|
| 208 |
+
]
|
| 209 |
+
},
|
| 210 |
+
{
|
| 211 |
+
"donor_id": "Skin-S74",
|
| 212 |
+
"assigned_stratum": true,
|
| 213 |
+
"selected_sample_id": "Skin-S74",
|
| 214 |
+
"candidates": [
|
| 215 |
+
{
|
| 216 |
+
"sample_id": "Skin-S74",
|
| 217 |
+
"time_value": 0.0,
|
| 218 |
+
"time_raw": "none (single sample per donor)",
|
| 219 |
+
"time_field": "timepoint",
|
| 220 |
+
"group": "adult_sepsis"
|
| 221 |
+
}
|
| 222 |
+
]
|
| 223 |
+
},
|
| 224 |
+
{
|
| 225 |
+
"donor_id": "Res-S136",
|
| 226 |
+
"assigned_stratum": true,
|
| 227 |
+
"selected_sample_id": "Res-S136",
|
| 228 |
+
"candidates": [
|
| 229 |
+
{
|
| 230 |
+
"sample_id": "Res-S136",
|
| 231 |
+
"time_value": 0.0,
|
| 232 |
+
"time_raw": "none (single sample per donor)",
|
| 233 |
+
"time_field": "timepoint",
|
| 234 |
+
"group": "adult_sepsis"
|
| 235 |
+
}
|
| 236 |
+
]
|
| 237 |
+
},
|
| 238 |
+
{
|
| 239 |
+
"donor_id": "Res-S77",
|
| 240 |
+
"assigned_stratum": true,
|
| 241 |
+
"selected_sample_id": "Res-S77",
|
| 242 |
+
"candidates": [
|
| 243 |
+
{
|
| 244 |
+
"sample_id": "Res-S77",
|
| 245 |
+
"time_value": 0.0,
|
| 246 |
+
"time_raw": "none (single sample per donor)",
|
| 247 |
+
"time_field": "timepoint",
|
| 248 |
+
"group": "adult_sepsis"
|
| 249 |
+
}
|
| 250 |
+
]
|
| 251 |
+
}
|
| 252 |
+
],
|
| 253 |
+
"sha256": "ea331f967a3a212b91cd144bd8ba62cea3cbfe3bdcc9e77268e190757327b0e2"
|
| 254 |
+
}
|