Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw1/per_donor.csv +0 -0
- paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw1/summary.json +1292 -0
- paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw2/contrast.csv +27 -0
- paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw2/per_donor.csv +0 -0
paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw1/per_donor.csv
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paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw1/summary.json
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|
| 1 |
+
{
|
| 2 |
+
"schema": "paired_ft_scores.v1",
|
| 3 |
+
"dataset": "imperial_eskd",
|
| 4 |
+
"written_utc": "2026-10-06T02:17:03.956116+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 |
+
"imperial_eskd",
|
| 9 |
+
"--out",
|
| 10 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw1",
|
| 11 |
+
"--threads",
|
| 12 |
+
"6",
|
| 13 |
+
"--donors",
|
| 14 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/imperial_eskd/fewshot_n5/draw1/test_samples.txt",
|
| 15 |
+
"--case-groups",
|
| 16 |
+
"covid_positive",
|
| 17 |
+
"--control-groups",
|
| 18 |
+
"covid_negative",
|
| 19 |
+
"--arm",
|
| 20 |
+
"lora5=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/ref_k1000/imperial_eskd/draw1/lora__raw.npz",
|
| 21 |
+
"--arm",
|
| 22 |
+
"lora5_k4000=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/bulkonly_lora5_k4000_20261006/generated/imperial_eskd/draw1/paired_test_K4000.npz"
|
| 23 |
+
],
|
| 24 |
+
"arms": [
|
| 25 |
+
"lora5",
|
| 26 |
+
"lora5_k4000"
|
| 27 |
+
],
|
| 28 |
+
"donors": [
|
| 29 |
+
"C20_1004",
|
| 30 |
+
"C20_1404",
|
| 31 |
+
"C21_1004",
|
| 32 |
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"C21_1704",
|
| 33 |
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"C21_2504",
|
| 34 |
+
"C23_2204",
|
| 35 |
+
"C33_1401",
|
| 36 |
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"C33_1601",
|
| 37 |
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"C33_1901",
|
| 38 |
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"C34_1404",
|
| 39 |
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"C34_2104",
|
| 40 |
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"C34_2504",
|
| 41 |
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"C36_1504",
|
| 42 |
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|
| 43 |
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|
| 44 |
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|
| 45 |
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|
| 46 |
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|
| 47 |
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|
| 48 |
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|
| 49 |
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|
| 50 |
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|
| 51 |
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|
| 52 |
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|
| 53 |
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|
| 54 |
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|
| 55 |
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|
| 56 |
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|
| 57 |
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|
| 58 |
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|
| 59 |
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| 60 |
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|
| 61 |
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| 62 |
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|
| 63 |
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|
| 64 |
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|
| 65 |
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| 66 |
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| 67 |
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| 68 |
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|
| 69 |
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| 70 |
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| 71 |
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| 72 |
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|
| 73 |
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| 74 |
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|
| 75 |
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| 76 |
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| 77 |
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| 83 |
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| 95 |
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| 96 |
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| 132 |
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| 136 |
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| 138 |
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| 139 |
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| 146 |
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| 148 |
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| 149 |
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| 150 |
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| 151 |
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| 152 |
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| 153 |
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| 154 |
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"C190_2901",
|
| 155 |
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|
| 156 |
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|
| 157 |
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|
| 158 |
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|
| 159 |
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|
| 160 |
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| 161 |
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| 162 |
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| 163 |
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| 164 |
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"C212_2705",
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| 165 |
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|
| 166 |
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"C234_2805",
|
| 167 |
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| 168 |
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|
| 169 |
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|
| 170 |
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"C246_2905",
|
| 171 |
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"C251_2905"
|
| 172 |
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],
|
| 173 |
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"n_donors": 143,
|
| 174 |
+
"reference": {
|
| 175 |
+
"cache": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/imperial_eskd",
|
| 176 |
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"reference_sha256": "34b4caa3f8a60b46d5faf58f09cdaa5622bcce19e4c45d9902a711fead96375e",
|
| 177 |
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"features_sha256": "e46e5bb1a24eae045efe75125d20e3accaa8f68a1006eb2f60d24159013d4aa7",
|
| 178 |
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"n_r1_cells": 21395,
|
| 179 |
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"pca": {
|
| 180 |
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"n_components": 50,
|
| 181 |
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"explained_variance_ratio_sum": 0.25817039608955383,
|
| 182 |
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"n_fit_cells": 21395
|
| 183 |
+
},
|
| 184 |
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"r2_control": {
|
| 185 |
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"precision": 0.9685440523486796,
|
| 186 |
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"coverage": 0.999813040430007,
|
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"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/tools/immicro_common.py": "c5c30e917148cc5e664e91ea30c11bbdff9b6d1f53a3e0a13e16b1917eff37e9",
|
| 1288 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/predict_scanvi.py": "482ee5dcf4d72b54bc36cbb6dcff62e5030bc7afc46cb5fb01eca73a82ee45a5",
|
| 1289 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/poisson_readout.py": "8bfa080942fbcdc89ae23b276524a1a83266fb8cbc56b9af279e50f82e6cde38"
|
| 1290 |
+
},
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| 1291 |
+
"seconds": 83.9
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| 1292 |
+
}
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paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw2/contrast.csv
ADDED
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| 1 |
+
arm,celltype,statistic,n_genes,r_generated,r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast,n_case_donors_obs,n_control_donors_obs,n_case_donors_gen,n_control_donors_gen,n_cells_obs,n_cells_gen,deg_scored,top50_overlap,top50_jaccard,obs_top_list_size,gen_top_list_size,n_sig_obs,n_sig_gen,top50_overlap_broadcast,top50_jaccard_broadcast,broadcast_top_list_size,n_sig_broadcast
|
| 2 |
+
lora5,T cell,mean_cp10k,3036,0.7743895219281159,0.6311553277299028,0.704182556591567,0.45734673401934,103,31,103,31,249798,110976,,,,,,,,,,,
|
| 3 |
+
lora5,T cell,pseudobulk_log1p_cpm,3036,0.6756439652998227,0.6350373450250355,0.5311507905699898,0.507050825942118,103,31,103,31,249798,110976,,,,,,,,,,,
|
| 4 |
+
lora5,B cell,mean_cp10k,3187,0.6421883096352491,0.6245632309702648,0.5336425850820883,0.4238340298732571,103,31,103,31,46668,20441,,,,,,,,,,,
|
| 5 |
+
lora5,B cell,pseudobulk_log1p_cpm,3187,0.29359070096459816,0.4816610289030315,0.20678547355629068,0.2447446474659733,103,31,103,31,46668,20441,,,,,,,,,,,
|
| 6 |
+
lora5,Monocyte,mean_cp10k,2886,0.6975675744840075,0.6837051334204964,0.4828910819902914,0.613087747747402,102,31,103,31,75478,37363,,,,,,,,,,,
|
| 7 |
+
lora5,Monocyte,pseudobulk_log1p_cpm,2886,0.6001740197549343,0.6802082395314715,0.4073868312538059,0.5028699068075709,102,31,103,31,75478,37363,,,,,,,,,,,
|
| 8 |
+
lora5,NK cell,mean_cp10k,2961,0.7416729977186952,0.6340215947478178,0.5850326392796552,0.5977284275399235,103,31,103,31,66389,21976,,,,,,,,,,,
|
| 9 |
+
lora5,NK cell,pseudobulk_log1p_cpm,2961,0.5078604216295737,0.5753918871563406,0.30232184690040514,0.5140228962575366,103,31,103,31,66389,21976,,,,,,,,,,,
|
| 10 |
+
lora5,T cell,welch_top50_deg,5927,,,,,103,31,103,31,249798,110976,True,26,0.35135135135135137,50,50,655,1578,13,0.14942528735632185,50,2026
|
| 11 |
+
lora5,B cell,welch_top50_deg,5927,,,,,103,31,103,31,46668,20441,True,20,0.25,50,50,240,269,10,0.1111111111111111,50,2026
|
| 12 |
+
lora5,Monocyte,welch_top50_deg,5927,,,,,102,31,103,31,75478,37363,True,26,0.35135135135135137,50,50,235,481,18,0.21951219512195122,50,2026
|
| 13 |
+
lora5,NK cell,welch_top50_deg,5927,,,,,103,31,103,31,66389,21976,True,21,0.26582278481012656,50,50,359,286,13,0.14942528735632185,50,2026
|
| 14 |
+
lora5,DC,welch_top50_deg,5927,,,,,103,31,102,31,12425,6924,True,10,0.1111111111111111,50,50,214,266,11,0.12359550561797752,50,2026
|
| 15 |
+
lora5_k4000,T cell,mean_cp10k,3036,0.7912569091612014,0.6311553277299028,0.7114103889757363,0.49302009696736393,103,31,103,31,249798,111162,,,,,,,,,,,
|
| 16 |
+
lora5_k4000,T cell,pseudobulk_log1p_cpm,3036,0.6862617613298028,0.6350373450250355,0.5255642719205001,0.5443830486854141,103,31,103,31,249798,111162,,,,,,,,,,,
|
| 17 |
+
lora5_k4000,B cell,mean_cp10k,3187,0.6735733859909294,0.6245632309702648,0.5490194845899149,0.4739687865696062,103,31,103,31,46668,23994,,,,,,,,,,,
|
| 18 |
+
lora5_k4000,B cell,pseudobulk_log1p_cpm,3187,0.38162835032868153,0.4816610289030315,0.25479957768976313,0.35976306295602667,103,31,103,31,46668,23994,,,,,,,,,,,
|
| 19 |
+
lora5_k4000,Monocyte,mean_cp10k,2886,0.6989491293884019,0.6837051334204964,0.48941022965126296,0.6072711414673209,102,31,102,31,75478,38644,,,,,,,,,,,
|
| 20 |
+
lora5_k4000,Monocyte,pseudobulk_log1p_cpm,2886,0.5838185636967027,0.6802082395314715,0.38865051723477356,0.4941857387635239,102,31,102,31,75478,38644,,,,,,,,,,,
|
| 21 |
+
lora5_k4000,NK cell,mean_cp10k,2961,0.7153553766481094,0.6340215947478178,0.5514006731346472,0.5808028029115089,103,31,103,31,66389,17065,,,,,,,,,,,
|
| 22 |
+
lora5_k4000,NK cell,pseudobulk_log1p_cpm,2961,0.4851411622760046,0.5753918871563406,0.2952478961584612,0.47350427882695406,103,31,103,31,66389,17065,,,,,,,,,,,
|
| 23 |
+
lora5_k4000,T cell,welch_top50_deg,5927,,,,,103,31,103,31,249798,111162,True,29,0.4084507042253521,50,50,655,1421,13,0.14942528735632185,50,2026
|
| 24 |
+
lora5_k4000,B cell,welch_top50_deg,5927,,,,,103,31,103,31,46668,23994,True,20,0.25,50,50,240,262,10,0.1111111111111111,50,2026
|
| 25 |
+
lora5_k4000,Monocyte,welch_top50_deg,5927,,,,,102,31,102,31,75478,38644,True,27,0.3698630136986301,50,50,235,369,18,0.21951219512195122,50,2026
|
| 26 |
+
lora5_k4000,NK cell,welch_top50_deg,5927,,,,,103,31,103,31,66389,17065,True,17,0.20481927710843373,50,50,359,199,13,0.14942528735632185,50,2026
|
| 27 |
+
lora5_k4000,DC,welch_top50_deg,5927,,,,,103,31,101,31,12425,6847,True,17,0.20481927710843373,50,50,214,128,11,0.12359550561797752,50,2026
|
paper-releases/pbisc-diffusion/updates/20261006T033847Z-bulkonly-lora5-k4000/diffusion/dataset/server_1/model8/plans/bulkonly_lora5_k4000_20261006/scores/imperial_eskd/draw2/per_donor.csv
ADDED
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