junidude14 commited on
Commit
81ade4d
·
verified ·
1 Parent(s): ed30c8e

Archive 4 checkpoints (1-4)

Browse files
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scores/immicro/healthy/fold0/n5/score/summary.json ADDED
@@ -0,0 +1,700 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "schema": "paired_ft_scores.v1",
3
+ "dataset": "immicro",
4
+ "written_utc": "2026-10-12T12:26:06.937934+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
+ "immicro",
9
+ "--out",
10
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/immicro/healthy/fold0/n5/score",
11
+ "--donors",
12
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/immicro/healthy/fold0/n5/test_sample_ids.txt",
13
+ "--threads",
14
+ "4",
15
+ "--arm",
16
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/lora.npz",
17
+ "--arm",
18
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/pairedcal.npz",
19
+ "--arm",
20
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/scsemi.npz",
21
+ "--arm",
22
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/raw.npz",
23
+ "--arm",
24
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/refcal.npz",
25
+ "--no-contrast",
26
+ "--no-deg"
27
+ ],
28
+ "arms": [
29
+ "lora",
30
+ "pairedcal",
31
+ "scsemi",
32
+ "raw",
33
+ "refcal"
34
+ ],
35
+ "donors": [
36
+ "HS3",
37
+ "HS6",
38
+ "HS7",
39
+ "HS13",
40
+ "HS18",
41
+ "HS31",
42
+ "HS34",
43
+ "HS37",
44
+ "HS38",
45
+ "HS52",
46
+ "HS58",
47
+ "HS60",
48
+ "HS66",
49
+ "HS81",
50
+ "HS82",
51
+ "HS83",
52
+ "HS85",
53
+ "HS86",
54
+ "HS95",
55
+ "HS98",
56
+ "HS101",
57
+ "HS107"
58
+ ],
59
+ "n_donors": 22,
60
+ "reference": {
61
+ "cache": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/immicro",
62
+ "reference_sha256": "c5e2547be3ec3b12cb0c0b404a49e14a046ae59d40be70427f98f083a76bce17",
63
+ "features_sha256": "735255066ce7ebbac13a1fdfd058e26f31edd60314cc02fd589b0a292dbbc838",
64
+ "n_r1_cells": 3300,
65
+ "pca": {
66
+ "n_components": 50,
67
+ "explained_variance_ratio_sum": 0.3059765696525574,
68
+ "n_fit_cells": 3300
69
+ },
70
+ "r2_control": {
71
+ "precision": 0.9957575757575757,
72
+ "coverage": 1.0,
73
+ "density": 2.608393939393939,
74
+ "n_query": 3300,
75
+ "depth_matched": {
76
+ "precision": 0.9936363636363637,
77
+ "coverage": 1.0,
78
+ "density": 2.558878787878788
79
+ }
80
+ },
81
+ "observed_l1_loo_null_mean": 0.16302776481179745
82
+ },
83
+ "contrast_definition": {
84
+ "enabled": false,
85
+ "reason": "--no-contrast"
86
+ },
87
+ "deg_definition": {
88
+ "enabled": false,
89
+ "reason": "--no-deg"
90
+ },
91
+ "headline": {
92
+ "lora": {
93
+ "comp_l1": 0.18047144313256866,
94
+ "comp_l1_obs_loo_null": 0.16302776481179745,
95
+ "precision": 0.9945454545454545,
96
+ "coverage": 0.9075757575757576,
97
+ "precision_dm": 0.9975757575757576,
98
+ "coverage_dm": 0.9915151515151515,
99
+ "pb_r_median": 0.9015084985704558,
100
+ "pb_top1": 0.18181818181818182,
101
+ "mono_pct_gen": 14.703030303030303,
102
+ "mono_pct_obs": 18.503211518737277,
103
+ "median_umi_gen": 2782.0,
104
+ "median_umi_obs": 1976.0,
105
+ "seconds": 7.3
106
+ },
107
+ "pairedcal": {
108
+ "comp_l1": 0.22241275521199746,
109
+ "comp_l1_obs_loo_null": 0.16302776481179745,
110
+ "precision": 0.9887878787878788,
111
+ "coverage": 0.7245454545454545,
112
+ "precision_dm": 0.9866666666666667,
113
+ "coverage_dm": 0.9051515151515152,
114
+ "pb_r_median": 0.878595691675953,
115
+ "pb_top1": 0.13636363636363635,
116
+ "mono_pct_gen": 12.048484848484847,
117
+ "mono_pct_obs": 18.503211518737277,
118
+ "median_umi_gen": 2471.0,
119
+ "median_umi_obs": 1976.0,
120
+ "seconds": 6.9
121
+ },
122
+ "scsemi": {
123
+ "comp_l1": 0.2568256469172848,
124
+ "comp_l1_obs_loo_null": 0.16302776481179745,
125
+ "precision": 0.7363636363636363,
126
+ "coverage": 0.08666666666666667,
127
+ "precision_dm": 0.8145454545454546,
128
+ "coverage_dm": 0.31363636363636366,
129
+ "pb_r_median": 0.6622656812951935,
130
+ "pb_top1": 0.13636363636363635,
131
+ "mono_pct_gen": 11.887878787878789,
132
+ "mono_pct_obs": 18.503211518737277,
133
+ "median_umi_gen": 2056.0,
134
+ "median_umi_obs": 1976.0,
135
+ "seconds": 6.7
136
+ },
137
+ "raw": {
138
+ "comp_l1": 0.47238641254571206,
139
+ "comp_l1_obs_loo_null": 0.16302776481179745,
140
+ "precision": 0.9103030303030303,
141
+ "coverage": 0.403030303030303,
142
+ "precision_dm": 0.8803030303030303,
143
+ "coverage_dm": 0.40424242424242424,
144
+ "pb_r_median": 0.892590975590131,
145
+ "pb_top1": 0.045454545454545456,
146
+ "mono_pct_gen": 36.81515151515152,
147
+ "mono_pct_obs": 18.503211518737277,
148
+ "median_umi_gen": 1701.0,
149
+ "median_umi_obs": 1976.0,
150
+ "seconds": 19.3
151
+ },
152
+ "refcal": {
153
+ "comp_l1": 0.15475386729011903,
154
+ "comp_l1_obs_loo_null": 0.16302776481179745,
155
+ "precision": 0.8821212121212121,
156
+ "coverage": 0.16303030303030303,
157
+ "precision_dm": 0.9024242424242425,
158
+ "coverage_dm": 0.28,
159
+ "pb_r_median": 0.8562066592650703,
160
+ "pb_top1": 0.09090909090909091,
161
+ "mono_pct_gen": 18.14848484848485,
162
+ "mono_pct_obs": 18.503211518737277,
163
+ "median_umi_gen": 2533.0,
164
+ "median_umi_obs": 1976.0,
165
+ "seconds": 17.6
166
+ }
167
+ },
168
+ "per_arm": {
169
+ "lora": {
170
+ "arm": "lora",
171
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/lora.npz",
172
+ "npz_sha256": "b5cb9f117896f42c0174a90d3f99907562afcdcf9eeb6587b58fcc0335c84401",
173
+ "receipt_verified": true,
174
+ "generation": {
175
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/runs/immicro/healthy/fold0/n5/lora/checkpoint_ft.pt",
176
+ "checkpoint_sha256": "51eb269bf13e9ead76da3fdd3bb9ca6400c2de7014f85286ecc0e0c11ad9df11",
177
+ "input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_raw.npz",
178
+ "input_condition_sha256": "51ad5b8f668b55d80d2f8d275a3a2a9b56f7daa768d6b607dcea4b7379465f60",
179
+ "seed": 20260928,
180
+ "steps": 50,
181
+ "support_readout": "bernoulli",
182
+ "weights": "ema"
183
+ },
184
+ "condition_for_broadcast": null,
185
+ "poisson": {
186
+ "seed": 20260916,
187
+ "rule": "whole NPZ, rows in NPZ order",
188
+ "nnz_whole_npz": 9635570,
189
+ "median_library_whole_npz_panel": 2784.0,
190
+ "n_rows_whole_npz": 33000
191
+ },
192
+ "annotation": {
193
+ "model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
194
+ "zero_padded_model_genes": 1,
195
+ "label_counts": {
196
+ "T cell": 22733,
197
+ "Monocyte": 4852,
198
+ "B cell": 2302,
199
+ "NK cell": 1518,
200
+ "DC": 1364,
201
+ "Other": 231
202
+ },
203
+ "mean_l2_max_prob": 0.9200920877980463,
204
+ "predict_seconds": 3.5
205
+ },
206
+ "n_donors": 22,
207
+ "n_generated_cells": 33000,
208
+ "composition": {
209
+ "l1_mean": 0.18047144313256866,
210
+ "l1_median": 0.1618839175219473,
211
+ "l1_obs_loo_null_mean": 0.16302776481179745,
212
+ "l1_generated_loo_mean_vs_observed_mean": 0.19691305340535498,
213
+ "composition_top1": 0.13636363636363635,
214
+ "mean_fraction_generated": {
215
+ "T cell": 0.688879,
216
+ "B cell": 0.069758,
217
+ "Monocyte": 0.14703,
218
+ "NK cell": 0.046,
219
+ "DC": 0.041333,
220
+ "Other": 0.007
221
+ },
222
+ "mean_fraction_observed": {
223
+ "T cell": 0.637846,
224
+ "B cell": 0.065772,
225
+ "Monocyte": 0.185032,
226
+ "NK cell": 0.081281,
227
+ "DC": 0.023594,
228
+ "Other": 0.006476
229
+ }
230
+ },
231
+ "pseudobulk": {
232
+ "n_genes": 5508,
233
+ "r_median": 0.9015084985704558,
234
+ "r_mean": 0.9019866762960125,
235
+ "top1": 0.18181818181818182,
236
+ "n_top1": 4,
237
+ "own_rank_median": 6.5,
238
+ "chance_top1": 0.045454545454545456
239
+ },
240
+ "precision_coverage": {
241
+ "precision": 0.9945454545454545,
242
+ "coverage": 0.9075757575757576,
243
+ "density": 2.708909090909091,
244
+ "n_query": 3300,
245
+ "n_reference": 3300
246
+ },
247
+ "precision_coverage_depth_matched": {
248
+ "precision": 0.9975757575757576,
249
+ "coverage": 0.9915151515151515,
250
+ "density": 3.8813636363636363,
251
+ "detected_median_before": {
252
+ "R1": 365.0,
253
+ "Q": 281.0
254
+ },
255
+ "detected_median_after": {
256
+ "R1": 281.0,
257
+ "Q": 281.0
258
+ }
259
+ },
260
+ "monocyte_pct": {
261
+ "generated_mean_over_donors": 14.703030303030303,
262
+ "observed_mean_over_donors": 18.503211518737277,
263
+ "generated_pooled_cells": 14.703030303030303
264
+ },
265
+ "median_umi_per_cell_scoring_genes": {
266
+ "generated_pooled": 2782.0,
267
+ "observed_pooled": 1976.0,
268
+ "generated_mean_of_donor_medians": 2767.772705078125,
269
+ "observed_mean_of_donor_medians": 2003.1363636363637
270
+ },
271
+ "seconds": 7.3
272
+ },
273
+ "pairedcal": {
274
+ "arm": "pairedcal",
275
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/pairedcal.npz",
276
+ "npz_sha256": "c466efc1179ea73bd935cc94ead2c4241d67986b7efca560b52cfe2cd1aada1b",
277
+ "receipt_verified": true,
278
+ "generation": {
279
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt",
280
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
281
+ "input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_cal.npz",
282
+ "input_condition_sha256": "da8372dc7b84bbec7022c28fef61fa8dc0b3f82807183498155a60f97f67e82d",
283
+ "seed": 20260928,
284
+ "steps": 50,
285
+ "support_readout": "bernoulli",
286
+ "weights": "ema"
287
+ },
288
+ "condition_for_broadcast": null,
289
+ "poisson": {
290
+ "seed": 20260916,
291
+ "rule": "whole NPZ, rows in NPZ order",
292
+ "nnz_whole_npz": 8777248,
293
+ "median_library_whole_npz_panel": 2471.0,
294
+ "n_rows_whole_npz": 33000
295
+ },
296
+ "annotation": {
297
+ "model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
298
+ "zero_padded_model_genes": 1,
299
+ "label_counts": {
300
+ "T cell": 23776,
301
+ "Monocyte": 3976,
302
+ "B cell": 2675,
303
+ "NK cell": 1698,
304
+ "Other": 500,
305
+ "DC": 375
306
+ },
307
+ "mean_l2_max_prob": 0.9126860870389324,
308
+ "predict_seconds": 3.4
309
+ },
310
+ "n_donors": 22,
311
+ "n_generated_cells": 33000,
312
+ "composition": {
313
+ "l1_mean": 0.22241275521199746,
314
+ "l1_median": 0.22293561477140128,
315
+ "l1_obs_loo_null_mean": 0.16302776481179745,
316
+ "l1_generated_loo_mean_vs_observed_mean": 0.23601518021283108,
317
+ "composition_top1": 0.13636363636363635,
318
+ "mean_fraction_generated": {
319
+ "T cell": 0.720485,
320
+ "B cell": 0.081061,
321
+ "Monocyte": 0.120485,
322
+ "NK cell": 0.051455,
323
+ "DC": 0.011364,
324
+ "Other": 0.015152
325
+ },
326
+ "mean_fraction_observed": {
327
+ "T cell": 0.637846,
328
+ "B cell": 0.065772,
329
+ "Monocyte": 0.185032,
330
+ "NK cell": 0.081281,
331
+ "DC": 0.023594,
332
+ "Other": 0.006476
333
+ }
334
+ },
335
+ "pseudobulk": {
336
+ "n_genes": 5508,
337
+ "r_median": 0.878595691675953,
338
+ "r_mean": 0.8790845888217508,
339
+ "top1": 0.13636363636363635,
340
+ "n_top1": 3,
341
+ "own_rank_median": 8.0,
342
+ "chance_top1": 0.045454545454545456
343
+ },
344
+ "precision_coverage": {
345
+ "precision": 0.9887878787878788,
346
+ "coverage": 0.7245454545454545,
347
+ "density": 2.2266969696969694,
348
+ "n_query": 3300,
349
+ "n_reference": 3300
350
+ },
351
+ "precision_coverage_depth_matched": {
352
+ "precision": 0.9866666666666667,
353
+ "coverage": 0.9051515151515152,
354
+ "density": 3.056909090909091,
355
+ "detected_median_before": {
356
+ "R1": 365.0,
357
+ "Q": 265.0
358
+ },
359
+ "detected_median_after": {
360
+ "R1": 265.0,
361
+ "Q": 265.0
362
+ }
363
+ },
364
+ "monocyte_pct": {
365
+ "generated_mean_over_donors": 12.048484848484847,
366
+ "observed_mean_over_donors": 18.503211518737277,
367
+ "generated_pooled_cells": 12.048484848484849
368
+ },
369
+ "median_umi_per_cell_scoring_genes": {
370
+ "generated_pooled": 2471.0,
371
+ "observed_pooled": 1976.0,
372
+ "generated_mean_of_donor_medians": 2483.1591796875,
373
+ "observed_mean_of_donor_medians": 2003.1363636363637
374
+ },
375
+ "seconds": 6.9
376
+ },
377
+ "scsemi": {
378
+ "arm": "scsemi",
379
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/scsemi.npz",
380
+ "npz_sha256": "309dfdeac8c044c023a5c126c6f917585ad8b41ff566f9af88344d2c0672feec",
381
+ "receipt_verified": true,
382
+ "generation": {
383
+ "checkpoint": null,
384
+ "checkpoint_sha256": null,
385
+ "input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_raw.npz",
386
+ "input_condition_sha256": "51ad5b8f668b55d80d2f8d275a3a2a9b56f7daa768d6b607dcea4b7379465f60",
387
+ "seed": 20260927,
388
+ "steps": null,
389
+ "support_readout": "upstream (values <= 10 normalized units zeroed by fast_semi)",
390
+ "weights": null
391
+ },
392
+ "condition_for_broadcast": null,
393
+ "poisson": {
394
+ "seed": 20260916,
395
+ "rule": "whole NPZ, rows in NPZ order",
396
+ "nnz_whole_npz": 4198972,
397
+ "median_library_whole_npz_panel": 2056.0,
398
+ "n_rows_whole_npz": 33000
399
+ },
400
+ "annotation": {
401
+ "model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
402
+ "zero_padded_model_genes": 1,
403
+ "label_counts": {
404
+ "T cell": 23331,
405
+ "Monocyte": 3923,
406
+ "B cell": 2095,
407
+ "DC": 2066,
408
+ "NK cell": 1416,
409
+ "Other": 169
410
+ },
411
+ "mean_l2_max_prob": 0.9183354571660359,
412
+ "predict_seconds": 3.4
413
+ },
414
+ "n_donors": 22,
415
+ "n_generated_cells": 33000,
416
+ "composition": {
417
+ "l1_mean": 0.2568256469172848,
418
+ "l1_median": 0.26174327468400305,
419
+ "l1_obs_loo_null_mean": 0.16302776481179745,
420
+ "l1_generated_loo_mean_vs_observed_mean": 0.24724428099564444,
421
+ "composition_top1": 0.045454545454545456,
422
+ "mean_fraction_generated": {
423
+ "T cell": 0.707,
424
+ "B cell": 0.063485,
425
+ "Monocyte": 0.118879,
426
+ "NK cell": 0.042909,
427
+ "DC": 0.062606,
428
+ "Other": 0.005121
429
+ },
430
+ "mean_fraction_observed": {
431
+ "T cell": 0.637846,
432
+ "B cell": 0.065772,
433
+ "Monocyte": 0.185032,
434
+ "NK cell": 0.081281,
435
+ "DC": 0.023594,
436
+ "Other": 0.006476
437
+ }
438
+ },
439
+ "pseudobulk": {
440
+ "n_genes": 5508,
441
+ "r_median": 0.6622656812951935,
442
+ "r_mean": 0.664124985071246,
443
+ "top1": 0.13636363636363635,
444
+ "n_top1": 3,
445
+ "own_rank_median": 11.5,
446
+ "chance_top1": 0.045454545454545456
447
+ },
448
+ "precision_coverage": {
449
+ "precision": 0.7363636363636363,
450
+ "coverage": 0.08666666666666667,
451
+ "density": 0.23706060606060606,
452
+ "n_query": 3300,
453
+ "n_reference": 3300
454
+ },
455
+ "precision_coverage_depth_matched": {
456
+ "precision": 0.8145454545454546,
457
+ "coverage": 0.31363636363636366,
458
+ "density": 0.4868181818181818,
459
+ "detected_median_before": {
460
+ "R1": 365.0,
461
+ "Q": 122.0
462
+ },
463
+ "detected_median_after": {
464
+ "R1": 122.0,
465
+ "Q": 122.0
466
+ }
467
+ },
468
+ "monocyte_pct": {
469
+ "generated_mean_over_donors": 11.887878787878789,
470
+ "observed_mean_over_donors": 18.503211518737277,
471
+ "generated_pooled_cells": 11.887878787878787
472
+ },
473
+ "median_umi_per_cell_scoring_genes": {
474
+ "generated_pooled": 2056.0,
475
+ "observed_pooled": 1976.0,
476
+ "generated_mean_of_donor_medians": 2056.4091796875,
477
+ "observed_mean_of_donor_medians": 2003.1363636363637
478
+ },
479
+ "seconds": 6.7
480
+ },
481
+ "raw": {
482
+ "arm": "raw",
483
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/raw.npz",
484
+ "npz_sha256": "6e7daa4ee148f44cf431a49a34ad5d7bbc8472d335e57a380d5a812414813053",
485
+ "receipt_verified": true,
486
+ "generation": {
487
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt",
488
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
489
+ "input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/conditions_raw.npz",
490
+ "input_condition_sha256": "5b205c49c303081baaa36d279f366d2fad24d277740c1c2d5d0067265720681b",
491
+ "seed": 20260928,
492
+ "steps": 50,
493
+ "support_readout": "bernoulli",
494
+ "weights": "ema"
495
+ },
496
+ "condition_for_broadcast": null,
497
+ "poisson": {
498
+ "seed": 20260916,
499
+ "rule": "whole NPZ, rows in NPZ order",
500
+ "nnz_whole_npz": 56394550,
501
+ "median_library_whole_npz_panel": 1737.0,
502
+ "n_rows_whole_npz": 160500
503
+ },
504
+ "annotation": {
505
+ "model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
506
+ "zero_padded_model_genes": 1,
507
+ "label_counts": {
508
+ "T cell": 14066,
509
+ "Monocyte": 12149,
510
+ "NK cell": 2547,
511
+ "B cell": 2314,
512
+ "Other": 1031,
513
+ "DC": 893
514
+ },
515
+ "mean_l2_max_prob": 0.9292852130374222,
516
+ "predict_seconds": 3.6
517
+ },
518
+ "n_donors": 22,
519
+ "n_generated_cells": 33000,
520
+ "composition": {
521
+ "l1_mean": 0.47238641254571206,
522
+ "l1_median": 0.4435650664045622,
523
+ "l1_obs_loo_null_mean": 0.16302776481179745,
524
+ "l1_generated_loo_mean_vs_observed_mean": 0.4753568490865965,
525
+ "composition_top1": 0.045454545454545456,
526
+ "mean_fraction_generated": {
527
+ "T cell": 0.426242,
528
+ "B cell": 0.070121,
529
+ "Monocyte": 0.368152,
530
+ "NK cell": 0.077182,
531
+ "DC": 0.027061,
532
+ "Other": 0.031242
533
+ },
534
+ "mean_fraction_observed": {
535
+ "T cell": 0.637846,
536
+ "B cell": 0.065772,
537
+ "Monocyte": 0.185032,
538
+ "NK cell": 0.081281,
539
+ "DC": 0.023594,
540
+ "Other": 0.006476
541
+ }
542
+ },
543
+ "pseudobulk": {
544
+ "n_genes": 5508,
545
+ "r_median": 0.892590975590131,
546
+ "r_mean": 0.8923915156452769,
547
+ "top1": 0.045454545454545456,
548
+ "n_top1": 1,
549
+ "own_rank_median": 6.0,
550
+ "chance_top1": 0.045454545454545456
551
+ },
552
+ "precision_coverage": {
553
+ "precision": 0.9103030303030303,
554
+ "coverage": 0.403030303030303,
555
+ "density": 0.5003030303030302,
556
+ "n_query": 3300,
557
+ "n_reference": 3300
558
+ },
559
+ "precision_coverage_depth_matched": {
560
+ "precision": 0.8803030303030303,
561
+ "coverage": 0.40424242424242424,
562
+ "density": 0.4825454545454545,
563
+ "detected_median_before": {
564
+ "R1": 365.0,
565
+ "Q": 349.0
566
+ },
567
+ "detected_median_after": {
568
+ "R1": 339.0,
569
+ "Q": 339.0
570
+ }
571
+ },
572
+ "monocyte_pct": {
573
+ "generated_mean_over_donors": 36.81515151515152,
574
+ "observed_mean_over_donors": 18.503211518737277,
575
+ "generated_pooled_cells": 36.81515151515152
576
+ },
577
+ "median_umi_per_cell_scoring_genes": {
578
+ "generated_pooled": 1701.0,
579
+ "observed_pooled": 1976.0,
580
+ "generated_mean_of_donor_medians": 1707.6590576171875,
581
+ "observed_mean_of_donor_medians": 2003.1363636363637
582
+ },
583
+ "seconds": 19.3
584
+ },
585
+ "refcal": {
586
+ "arm": "refcal",
587
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/refcal.npz",
588
+ "npz_sha256": "a3e30af27ad2b5f08b7b16848434a93dfdd3e995c43616fb2d29fdab73192d74",
589
+ "receipt_verified": true,
590
+ "generation": {
591
+ "checkpoint": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt",
592
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
593
+ "input_condition_path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/conditions_refcal.npz",
594
+ "input_condition_sha256": "3e62bb4e68bcae62870ee90ca7b07a061bf2f8d6962d6832e95488212296a237",
595
+ "seed": 20260928,
596
+ "steps": 50,
597
+ "support_readout": "bernoulli",
598
+ "weights": "ema"
599
+ },
600
+ "condition_for_broadcast": null,
601
+ "poisson": {
602
+ "seed": 20260916,
603
+ "rule": "whole NPZ, rows in NPZ order",
604
+ "nnz_whole_npz": 41000649,
605
+ "median_library_whole_npz_panel": 2558.0,
606
+ "n_rows_whole_npz": 160500
607
+ },
608
+ "annotation": {
609
+ "model_pt_sha256": "bf3655899e5abee435340fc008656c4a17342da0f30b70cfd43de8e9223e1930",
610
+ "zero_padded_model_genes": 1,
611
+ "label_counts": {
612
+ "T cell": 19508,
613
+ "Monocyte": 5989,
614
+ "NK cell": 3643,
615
+ "B cell": 2941,
616
+ "DC": 572,
617
+ "Other": 347
618
+ },
619
+ "mean_l2_max_prob": 0.9539651529974107,
620
+ "predict_seconds": 3.3
621
+ },
622
+ "n_donors": 22,
623
+ "n_generated_cells": 33000,
624
+ "composition": {
625
+ "l1_mean": 0.15475386729011903,
626
+ "l1_median": 0.1553424435212925,
627
+ "l1_obs_loo_null_mean": 0.16302776481179745,
628
+ "l1_generated_loo_mean_vs_observed_mean": 0.2086539158361772,
629
+ "composition_top1": 0.2727272727272727,
630
+ "mean_fraction_generated": {
631
+ "T cell": 0.591152,
632
+ "B cell": 0.089121,
633
+ "Monocyte": 0.181485,
634
+ "NK cell": 0.110394,
635
+ "DC": 0.017333,
636
+ "Other": 0.010515
637
+ },
638
+ "mean_fraction_observed": {
639
+ "T cell": 0.637846,
640
+ "B cell": 0.065772,
641
+ "Monocyte": 0.185032,
642
+ "NK cell": 0.081281,
643
+ "DC": 0.023594,
644
+ "Other": 0.006476
645
+ }
646
+ },
647
+ "pseudobulk": {
648
+ "n_genes": 5508,
649
+ "r_median": 0.8562066592650703,
650
+ "r_mean": 0.857580202302789,
651
+ "top1": 0.09090909090909091,
652
+ "n_top1": 2,
653
+ "own_rank_median": 10.0,
654
+ "chance_top1": 0.045454545454545456
655
+ },
656
+ "precision_coverage": {
657
+ "precision": 0.8821212121212121,
658
+ "coverage": 0.16303030303030303,
659
+ "density": 0.42948484848484847,
660
+ "n_query": 3300,
661
+ "n_reference": 3300
662
+ },
663
+ "precision_coverage_depth_matched": {
664
+ "precision": 0.9024242424242425,
665
+ "coverage": 0.28,
666
+ "density": 0.6577878787878788,
667
+ "detected_median_before": {
668
+ "R1": 365.0,
669
+ "Q": 244.0
670
+ },
671
+ "detected_median_after": {
672
+ "R1": 244.0,
673
+ "Q": 244.0
674
+ }
675
+ },
676
+ "monocyte_pct": {
677
+ "generated_mean_over_donors": 18.14848484848485,
678
+ "observed_mean_over_donors": 18.503211518737277,
679
+ "generated_pooled_cells": 18.14848484848485
680
+ },
681
+ "median_umi_per_cell_scoring_genes": {
682
+ "generated_pooled": 2533.0,
683
+ "observed_pooled": 1976.0,
684
+ "generated_mean_of_donor_medians": 2533.75,
685
+ "observed_mean_of_donor_medians": 2003.1363636363637
686
+ },
687
+ "seconds": 17.6
688
+ }
689
+ },
690
+ "code_sha256": {
691
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
692
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
693
+ "/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",
694
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/bulk2sc-paper/scripts/evaluate_generated_vs_truth.py": "48b12d794782b840838853e93e0fc55fab00532c4b3698f4588e926b985d2881",
695
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/tools/immicro_common.py": "c5c30e917148cc5e664e91ea30c11bbdff9b6d1f53a3e0a13e16b1917eff37e9",
696
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/predict_scanvi.py": "482ee5dcf4d72b54bc36cbb6dcff62e5030bc7afc46cb5fb01eca73a82ee45a5",
697
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/poisson_readout.py": "8bfa080942fbcdc89ae23b276524a1a83266fb8cbc56b9af279e50f82e6cde38"
698
+ },
699
+ "seconds": 64.1
700
+ }
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scores/immicro/healthy/fold0/n5/scoring_support.json ADDED
@@ -0,0 +1,121 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "schema": "pbisc.paper.strict-score-binding.v1",
3
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4",
4
+ "cohort": "immicro",
5
+ "unit": "fold0_n5",
6
+ "test_sample_ids": [
7
+ "HS3",
8
+ "HS6",
9
+ "HS7",
10
+ "HS13",
11
+ "HS18",
12
+ "HS31",
13
+ "HS34",
14
+ "HS37",
15
+ "HS38",
16
+ "HS52",
17
+ "HS58",
18
+ "HS60",
19
+ "HS66",
20
+ "HS81",
21
+ "HS82",
22
+ "HS83",
23
+ "HS85",
24
+ "HS86",
25
+ "HS95",
26
+ "HS98",
27
+ "HS101",
28
+ "HS107"
29
+ ],
30
+ "test_donor_ids": [
31
+ "HS3",
32
+ "HS6",
33
+ "HS7",
34
+ "HS13",
35
+ "HS18",
36
+ "HS31",
37
+ "HS34",
38
+ "HS37",
39
+ "HS38",
40
+ "HS52",
41
+ "HS58",
42
+ "HS60",
43
+ "HS66",
44
+ "HS81",
45
+ "HS82",
46
+ "HS83",
47
+ "HS85",
48
+ "HS86",
49
+ "HS95",
50
+ "HS98",
51
+ "HS101",
52
+ "HS107"
53
+ ],
54
+ "arm_bindings": {
55
+ "lora": {
56
+ "arm": "lora",
57
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/lora.npz",
58
+ "npz_sha256": "b5cb9f117896f42c0174a90d3f99907562afcdcf9eeb6587b58fcc0335c84401",
59
+ "receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/lora.log",
60
+ "receipt_sha256": "bf51a0a9d10b63cc1fd0f5010acb8b3ffe2b16ea63872aa1bce21b69cfaf13a4",
61
+ "source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/runs/immicro/healthy/fold0/n5/lora/RUN.json",
62
+ "source_binding_sha256": "92452f8776859a729274f5afc2e785a7d5869e80123a8297a5a3ac48719cc980",
63
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_raw.npz",
64
+ "condition_sha256": "51ad5b8f668b55d80d2f8d275a3a2a9b56f7daa768d6b607dcea4b7379465f60",
65
+ "checkpoint_sha256": "51eb269bf13e9ead76da3fdd3bb9ca6400c2de7014f85286ecc0e0c11ad9df11",
66
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4"
67
+ },
68
+ "pairedcal": {
69
+ "arm": "pairedcal",
70
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/pairedcal.npz",
71
+ "npz_sha256": "c466efc1179ea73bd935cc94ead2c4241d67986b7efca560b52cfe2cd1aada1b",
72
+ "receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/pairedcal.log",
73
+ "receipt_sha256": "4ecf95431b9ec6bfcaeefdfe0ea81c2e23a1a1a926e0ac727639db25aee8dddd",
74
+ "source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/CONDITIONS.json",
75
+ "source_binding_sha256": "c2dd049a8c0f9e3bb3a50bdb282527e5b123acc8b49de1472c8a58df3100a703",
76
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_cal.npz",
77
+ "condition_sha256": "da8372dc7b84bbec7022c28fef61fa8dc0b3f82807183498155a60f97f67e82d",
78
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
79
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4"
80
+ },
81
+ "scsemi": {
82
+ "arm": "scsemi",
83
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/scsemi.npz",
84
+ "npz_sha256": "309dfdeac8c044c023a5c126c6f917585ad8b41ff566f9af88344d2c0672feec",
85
+ "receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/immicro/healthy/fold0/n5/scsemi.log",
86
+ "receipt_sha256": "430ea9b1c6ab04e4385310c14eac56a94d3d8b3b79bd0336c4aeb0a42c61dfd1",
87
+ "source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scsemi/immicro/healthy/fold0/n5/inputs/inputs_manifest.json",
88
+ "source_binding_sha256": "40f5f38cfd2cff4a8c663396c95dc9a3d390a0018cc056cf315a0a44b18b62c3",
89
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/immicro/healthy/fold0/n5/test_raw.npz",
90
+ "condition_sha256": "51ad5b8f668b55d80d2f8d275a3a2a9b56f7daa768d6b607dcea4b7379465f60",
91
+ "checkpoint_sha256": null,
92
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4"
93
+ },
94
+ "raw": {
95
+ "arm": "raw",
96
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/raw.npz",
97
+ "npz_sha256": "6e7daa4ee148f44cf431a49a34ad5d7bbc8472d335e57a380d5a812414813053",
98
+ "receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/raw.log",
99
+ "receipt_sha256": "050566ea3dc9059444f67c9fe68ca4351b36e42743c0a7d033dfb85b3d5c2480",
100
+ "source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/BUILD.json",
101
+ "source_binding_sha256": "a53222b93a567569920a7f9a1165f9d2b4547c9e08b394af70733f0cc450ccd3",
102
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/conditions_raw.npz",
103
+ "condition_sha256": "5b205c49c303081baaa36d279f366d2fad24d277740c1c2d5d0067265720681b",
104
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
105
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4"
106
+ },
107
+ "refcal": {
108
+ "arm": "refcal",
109
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/refcal.npz",
110
+ "npz_sha256": "a3e30af27ad2b5f08b7b16848434a93dfdd3e995c43616fb2d29fdab73192d74",
111
+ "receipt": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/immicro/refcal.log",
112
+ "receipt_sha256": "91d3a9ba567910ca35b9fc9067121d9c6e43daba89065e915599e0fdaa19a5da",
113
+ "source_binding": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/BUILD.json",
114
+ "source_binding_sha256": "a53222b93a567569920a7f9a1165f9d2b4547c9e08b394af70733f0cc450ccd3",
115
+ "condition_npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/immicro/conditions_refcal.npz",
116
+ "condition_sha256": "3e62bb4e68bcae62870ee90ca7b07a061bf2f8d6962d6832e95488212296a237",
117
+ "checkpoint_sha256": "8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633",
118
+ "support_sha256": "85c04462a9c768c205fc0adfcb0a40e5f94f504a93d6d822944387bc055b65d4"
119
+ }
120
+ }
121
+ }
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scores/immicro/healthy/fold0/n5/statistics/donor_bootstrap_2000.csv ADDED
@@ -0,0 +1,113 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ arm,baseline,estimate,ci_low,ci_high,n_donors,n_paired_samples,n_excluded_nonfinite_pairs,n_boot,seed,bootstrap_unit,metric,status
2
+ pairedcal,lora,0.04194131207942882,0.02190902524407766,0.061527166558258614,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
3
+ raw,lora,0.2919149694131435,0.21356455782479972,0.36906678214477895,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
4
+ refcal,lora,-0.025717575842449606,-0.07518092925270191,0.020480748537424345,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
5
+ scsemi,lora,0.07635420378471623,0.035823708534476154,0.11854048490952863,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1,ok
6
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
7
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
8
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
9
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,comp_l1_obs_loo_null,ok
10
+ pairedcal,lora,-0.18303030303030302,-0.22606060606060607,-0.13938636363636372,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
11
+ raw,lora,-0.5045454545454545,-0.5530303030303031,-0.4581742424242425,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
12
+ refcal,lora,-0.7445454545454545,-0.7824242424242424,-0.703030303030303,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
13
+ scsemi,lora,-0.820909090909091,-0.8472727272727273,-0.7933333333333334,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage,ok
14
+ pairedcal,lora,-0.08636363636363634,-0.11182575757575759,-0.06211363636363637,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
15
+ raw,lora,-0.5872727272727273,-0.6403030303030302,-0.5403030303030304,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
16
+ refcal,lora,-0.7115151515151515,-0.7724393939393941,-0.643628787878788,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
17
+ scsemi,lora,-0.6778787878787879,-0.7206060606060607,-0.6378787878787879,22,22,0,2000,20261012,donor_all_draws_and_visits,coverage_depth_matched,ok
18
+ pairedcal,lora,0.011303030303030303,0.004787878787878791,0.01721212121212121,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
19
+ raw,lora,0.0003636363636363602,-0.005577272727272731,0.006484848484848474,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
20
+ refcal,lora,0.019363636363636364,0.009665909090909088,0.029151515151515154,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
21
+ scsemi,lora,-0.006272727272727266,-0.01857954545454544,0.00663863636363634,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_B cell,ok
22
+ pairedcal,lora,-0.02996969696969697,-0.03378863636363638,-0.025726515151515153,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
23
+ raw,lora,-0.014272727272727275,-0.018970454545454547,-0.00936363636363636,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
24
+ refcal,lora,-0.02400000000000001,-0.02812272727272729,-0.019848484848484862,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
25
+ scsemi,lora,0.021272727272727263,0.01403030303030303,0.027970454545454538,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_DC,ok
26
+ pairedcal,lora,-0.02654545454545453,-0.03797045454545456,-0.014998484848484832,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
27
+ raw,lora,0.2211212121212121,0.20327121212121219,0.2397886363636364,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
28
+ refcal,lora,0.03445454545454546,0.025452272727272747,0.044303787878787866,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
29
+ scsemi,lora,-0.02815151515151516,-0.05324318181818183,-0.005570454545454569,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Monocyte,ok
30
+ pairedcal,lora,0.005454545454545459,-0.0002431818181818302,0.01127348484848484,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
31
+ raw,lora,0.031181818181818186,0.021938636363636355,0.03997121212121212,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
32
+ refcal,lora,0.06439393939393936,0.05175303030303028,0.07733560606060605,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
33
+ scsemi,lora,-0.003090909090909095,-0.010759090909090923,0.0045454545454545175,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_NK cell,ok
34
+ pairedcal,lora,0.008151515151515156,0.005969696969696973,0.010727272727272724,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
35
+ raw,lora,0.024242424242424267,0.020059848484848503,0.028515151515151545,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
36
+ refcal,lora,0.003515151515151527,0.0013333333333333454,0.005515151515151518,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
37
+ scsemi,lora,-0.0018787878787878776,-0.003909848484848484,0.00018181818181817273,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_Other,ok
38
+ pairedcal,lora,0.03160606060606062,0.019939393939393955,0.04273030303030302,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
39
+ raw,lora,-0.26263636363636367,-0.2783689393939394,-0.24778712121212126,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
40
+ refcal,lora,-0.09772727272727272,-0.11203409090909093,-0.08336363636363636,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
41
+ scsemi,lora,0.018121212121212118,-0.00915606060606062,0.046580303030303014,22,22,0,2000,20261012,donor_all_draws_and_visits,gen_T cell,ok
42
+ pairedcal,lora,-284.6136363636364,-360.40511363636364,-206.76590909090913,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
43
+ raw,lora,-1060.1136363636363,-1188.5465909090908,-928.0068181818183,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
44
+ refcal,lora,-234.02272727272728,-298.6198863636364,-170.99602272727276,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
45
+ scsemi,lora,-711.3636363636364,-841.9562500000001,-580.9863636363638,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_gen,ok
46
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
47
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
48
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
49
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,median_umi_obs,ok
50
+ pairedcal,lora,-2.6545454545454548,-3.7970454545454544,-1.4998484848484854,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
51
+ raw,lora,22.112121212121213,20.327121212121213,23.97886363636364,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
52
+ refcal,lora,3.445454545454545,2.545227272727273,4.430378787878788,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
53
+ scsemi,lora,-2.8151515151515154,-5.3243181818181835,-0.5570454545454572,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_gen,ok
54
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
55
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
56
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
57
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,mono_pct_obs,ok
58
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
59
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
60
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
61
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_generated_cells,ok
62
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
63
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
64
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
65
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_observed_cells,ok
66
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
67
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
68
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
69
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,n_reference_cells,ok
70
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
71
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
72
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
73
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_B cell,ok
74
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
75
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
76
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
77
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_DC,ok
78
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
79
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
80
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
81
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Monocyte,ok
82
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
83
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
84
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
85
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_NK cell,ok
86
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
87
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
88
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
89
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_Other,ok
90
+ pairedcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
91
+ raw,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
92
+ refcal,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
93
+ scsemi,lora,0.0,0.0,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,obs_T cell,ok
94
+ pairedcal,lora,0.6363636363636364,-0.7727272727272727,2.090909090909091,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
95
+ raw,lora,-0.4090909090909091,-2.5,1.8636363636363635,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
96
+ refcal,lora,1.1363636363636365,-0.045454545454545456,2.5,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
97
+ scsemi,lora,2.4545454545454546,0.8181818181818182,3.909090909090909,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_own_rank,ok
98
+ pairedcal,lora,-0.022902087474261923,-0.02515761921907998,-0.020649939866430746,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
99
+ raw,lora,-0.0095951606507357,-0.012882127251706952,-0.00660229697214771,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
100
+ refcal,lora,-0.044406473993223665,-0.047279385365095364,-0.04154843882321437,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
101
+ scsemi,lora,-0.23786169122476675,-0.24624154088266442,-0.22784028194606168,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_r,ok
102
+ pairedcal,lora,-0.045454545454545456,-0.18181818181818182,0.09090909090909091,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
103
+ raw,lora,-0.13636363636363635,-0.2727272727272727,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
104
+ refcal,lora,-0.09090909090909091,-0.2727272727272727,0.09090909090909091,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
105
+ scsemi,lora,-0.045454545454545456,-0.13636363636363635,0.0,22,22,0,2000,20261012,donor_all_draws_and_visits,pb_top1,ok
106
+ pairedcal,lora,-0.005757575757575719,-0.010303030303030248,-0.0012121212121211796,22,22,0,2000,20261012,donor_all_draws_and_visits,precision,ok
107
+ raw,lora,-0.08424242424242422,-0.10060606060606057,-0.0684848484848485,22,22,0,2000,20261012,donor_all_draws_and_visits,precision,ok
108
+ refcal,lora,-0.11242424242424241,-0.12667424242424247,-0.09908333333333334,22,22,0,2000,20261012,donor_all_draws_and_visits,precision,ok
109
+ scsemi,lora,-0.2581818181818182,-0.28787878787878785,-0.22757575757575757,22,22,0,2000,20261012,donor_all_draws_and_visits,precision,ok
110
+ pairedcal,lora,-0.010909090909090847,-0.015151515151515077,-0.006666666666666659,22,22,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
111
+ raw,lora,-0.11727272727272728,-0.1333333333333333,-0.10181818181818182,22,22,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
112
+ refcal,lora,-0.09515151515151513,-0.10757575757575756,-0.08181060606060606,22,22,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
113
+ scsemi,lora,-0.18303030303030302,-0.20485606060606057,-0.16060606060606056,22,22,0,2000,20261012,donor_all_draws_and_visits,precision_depth_matched,ok
paper-releases/pbisc-diffusion/updates/20261012T130738Z-strictpairs-implementation/diffusion/dataset/server_1/model8/plans/paper_figures_strictpairs_20261012/archive/20261012T130738Z-strictpairs-implementation/snapshot/scores/immicro/healthy/fold0/n5/statistics/patient_mapping.csv ADDED
@@ -0,0 +1,23 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ sample_id,donor_id
2
+ HS3,HS3
3
+ HS6,HS6
4
+ HS7,HS7
5
+ HS13,HS13
6
+ HS18,HS18
7
+ HS31,HS31
8
+ HS34,HS34
9
+ HS37,HS37
10
+ HS38,HS38
11
+ HS52,HS52
12
+ HS58,HS58
13
+ HS60,HS60
14
+ HS66,HS66
15
+ HS81,HS81
16
+ HS82,HS82
17
+ HS83,HS83
18
+ HS85,HS85
19
+ HS86,HS86
20
+ HS95,HS95
21
+ HS98,HS98
22
+ HS101,HS101
23
+ HS107,HS107