Hugging Face's logo

Datasets:
junidude14
/
PBISC-data

Modalities:
Tabular
Text
Formats:
parquet
Languages:
English
Size:
< 1K
Tags:
single-cell-rna-seq
bulk-rna-seq
diffusion
Libraries:
Datasets
pandas
Polars
Dataset card Data Studio Files
xet
 Community
1
junidude14 commited on
Commit
086f168
·
verified ·
1 Parent(s): 92a2265

Archive 4 checkpoints (1-4)

Browse files
Files changed (4) hide show
  1. paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/protocol/splits/ye2026_sepsis/disease/draw0/support.json +254 -0
  2. paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/receipts/ye2026_sepsis-disease-draw0-score.json +143 -0
  3. paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/scores/ye2026_sepsis/disease/draw0/contrast/ye2026_sepsis/strict/manifest.json +562 -0
  4. paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/scores/ye2026_sepsis/disease/draw0/extras/ye2026_sepsis/strict/manifest.json +153 -0
paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/protocol/splits/ye2026_sepsis/disease/draw0/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": "draw0_n5",
6
+ "n_pairs": 5,
7
+ "train_sample_ids": [
8
+ "HC07",
9
+ "Abd-S66",
10
+ "Res-S150",
11
+ "Skin-S74",
12
+ "Res-S77"
13
+ ],
14
+ "train_donor_ids": [
15
+ "HC07",
16
+ "Abd-S66",
17
+ "Res-S150",
18
+ "Skin-S74",
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-S79",
41
+ "Abd-S83",
42
+ "Abd-S98",
43
+ "HC01",
44
+ "HC05",
45
+ "HC09",
46
+ "HC12",
47
+ "HC13",
48
+ "HC16",
49
+ "IC10",
50
+ "IC15",
51
+ "IC16",
52
+ "IC19",
53
+ "IC22",
54
+ "IC23",
55
+ "PHC01",
56
+ "PHC02",
57
+ "PHC03",
58
+ "PHC05",
59
+ "PIC01",
60
+ "PIC02",
61
+ "PIC04",
62
+ "PIC05",
63
+ "Res-PS02",
64
+ "Res-PS03",
65
+ "Res-PS12",
66
+ "Res-PS16",
67
+ "Res-PS21",
68
+ "Res-PS22",
69
+ "Res-PS25",
70
+ "Res-PS26",
71
+ "Res-S10",
72
+ "Res-S125",
73
+ "Res-S127",
74
+ "Res-S136",
75
+ "Res-S139",
76
+ "Res-S146",
77
+ "Res-S149",
78
+ "Res-S164",
79
+ "Res-S166",
80
+ "Res-S174",
81
+ "Res-S177",
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-S79",
120
+ "Abd-S83",
121
+ "Abd-S98",
122
+ "HC01",
123
+ "HC05",
124
+ "HC09",
125
+ "HC12",
126
+ "HC13",
127
+ "HC16",
128
+ "IC10",
129
+ "IC15",
130
+ "IC16",
131
+ "IC19",
132
+ "IC22",
133
+ "IC23",
134
+ "PHC01",
135
+ "PHC02",
136
+ "PHC03",
137
+ "PHC05",
138
+ "PIC01",
139
+ "PIC02",
140
+ "PIC04",
141
+ "PIC05",
142
+ "Res-PS02",
143
+ "Res-PS03",
144
+ "Res-PS12",
145
+ "Res-PS16",
146
+ "Res-PS21",
147
+ "Res-PS22",
148
+ "Res-PS25",
149
+ "Res-PS26",
150
+ "Res-S10",
151
+ "Res-S125",
152
+ "Res-S127",
153
+ "Res-S136",
154
+ "Res-S139",
155
+ "Res-S146",
156
+ "Res-S149",
157
+ "Res-S164",
158
+ "Res-S166",
159
+ "Res-S174",
160
+ "Res-S177",
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": "HC07",
184
+ "assigned_stratum": false,
185
+ "selected_sample_id": "HC07",
186
+ "candidates": [
187
+ {
188
+ "sample_id": "HC07",
189
+ "time_value": 0.0,
190
+ "time_raw": "none (single sample per donor)",
191
+ "time_field": "timepoint",
192
+ "group": "adult_HC"
193
+ }
194
+ ]
195
+ },
196
+ {
197
+ "donor_id": "Abd-S66",
198
+ "assigned_stratum": true,
199
+ "selected_sample_id": "Abd-S66",
200
+ "candidates": [
201
+ {
202
+ "sample_id": "Abd-S66",
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": "Res-S150",
212
+ "assigned_stratum": true,
213
+ "selected_sample_id": "Res-S150",
214
+ "candidates": [
215
+ {
216
+ "sample_id": "Res-S150",
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": "Skin-S74",
226
+ "assigned_stratum": true,
227
+ "selected_sample_id": "Skin-S74",
228
+ "candidates": [
229
+ {
230
+ "sample_id": "Skin-S74",
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": "ad30daaf76d46edb695df2ae02cb67f8d8b3ae709630e8ec7ae87056258f9bda"
254
+ }
paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/receipts/ye2026_sepsis-disease-draw0-score.json ADDED
@@ -0,0 +1,143 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "state": "completed",
3
+ "signature": "48e152e6db5d13fb7fc294a0ac4083c73920c02b81d3b26ffa5f108cc286ff68",
4
+ "outputs": [
5
+ {
6
+ "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score/summary.json",
7
+ "bytes": 55493,
8
+ "mtime_ns": 1791817021802869858,
9
+ "sha256": "841049689ef4839a90ab6c90cf5b456aadf875104ef82c62aea0bba548dcf742"
10
+ },
11
+ {
12
+ "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/statistics/status.json",
13
+ "bytes": 694,
14
+ "mtime_ns": 1791818665945980025,
15
+ "sha256": "24708d27b1aa41ad11e2af040580e50b5425df9163634e038bef0826f0a706f7"
16
+ },
17
+ {
18
+ "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/statistics/donor_bootstrap_2000.csv",
19
+ "bytes": 13215,
20
+ "mtime_ns": 1791818483841613623,
21
+ "sha256": "aad670c960d24ddfb1360b46a05acf0ada75824c0d800b2612670ac30cecb538"
22
+ },
23
+ {
24
+ "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/extras/ye2026_sepsis/strict/manifest.json",
25
+ "bytes": 4375,
26
+ "mtime_ns": 1791818396432896827,
27
+ "sha256": "cea3245b2dccd35d1d585dd3d342713c23d8d438b1564f34b0603b945460df1b"
28
+ },
29
+ {
30
+ "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/contrast/ye2026_sepsis/strict/manifest.json",
31
+ "bytes": 18883,
32
+ "mtime_ns": 1791818483485251228,
33
+ "sha256": "c678141da4c7f923de7c401d074c0782edda3d5fba6f94bf20a5f750078864c4"
34
+ }
35
+ ],
36
+ "seconds": 1760.0342039810002,
37
+ "at": "2026-10-12T15:24:26.184568+00:00",
38
+ "execution": {
39
+ "host": "spark-fa6b",
40
+ "map_host": null,
41
+ "map_path": null,
42
+ "map_sha256": null,
43
+ "argv": [
44
+ "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
45
+ "-u",
46
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
47
+ "--support-manifest",
48
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw0/support.json",
49
+ "--out",
50
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0",
51
+ "--action",
52
+ "all",
53
+ "--threads",
54
+ "4",
55
+ "--arm",
56
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
57
+ "--arm",
58
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
59
+ "--arm",
60
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
61
+ "--arm",
62
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
63
+ "--arm",
64
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
65
+ ],
66
+ "command": [
67
+ "systemd-run",
68
+ "--user",
69
+ "--wait",
70
+ "--collect",
71
+ "--pipe",
72
+ "--quiet",
73
+ "--unit=pbisc-strict-ye2026_sepsis-disease-draw0-score-44882-1791816906149401107",
74
+ "--slice=app.slice",
75
+ "--working-directory=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012",
76
+ "--expand-environment=no",
77
+ "-p",
78
+ "MemoryMax=32G",
79
+ "-p",
80
+ "MemorySwapMax=0",
81
+ "-p",
82
+ "OOMPolicy=kill",
83
+ "-p",
84
+ "OOMScoreAdjust=500",
85
+ "-p",
86
+ "CPUQuota=400%",
87
+ "/usr/bin/env",
88
+ "CUDA_VISIBLE_DEVICES=",
89
+ "PATH=/home/sj_server_1/.local/bin:/home/sj_server_1/miniforge3/bin:/usr/local/bin:/usr/bin:/bin",
90
+ "PYTHONDONTWRITEBYTECODE=1",
91
+ "PYTHONUNBUFFERED=1",
92
+ "OMP_NUM_THREADS=4",
93
+ "OPENBLAS_NUM_THREADS=4",
94
+ "MKL_NUM_THREADS=4",
95
+ "NUMBA_NUM_THREADS=4",
96
+ "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
97
+ "-u",
98
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
99
+ "--support-manifest",
100
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw0/support.json",
101
+ "--out",
102
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0",
103
+ "--action",
104
+ "all",
105
+ "--threads",
106
+ "4",
107
+ "--arm",
108
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
109
+ "--arm",
110
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
111
+ "--arm",
112
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
113
+ "--arm",
114
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
115
+ "--arm",
116
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
117
+ ]
118
+ },
119
+ "argv": [
120
+ "/home/sj_server_1/miniforge3/envs/cxg_corpus/bin/python",
121
+ "-u",
122
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
123
+ "--support-manifest",
124
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw0/support.json",
125
+ "--out",
126
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0",
127
+ "--action",
128
+ "all",
129
+ "--threads",
130
+ "4",
131
+ "--arm",
132
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
133
+ "--arm",
134
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
135
+ "--arm",
136
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
137
+ "--arm",
138
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
139
+ "--arm",
140
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
141
+ ],
142
+ "previous_outputs": null
143
+ }
paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/scores/ye2026_sepsis/disease/draw0/contrast/ye2026_sepsis/strict/manifest.json ADDED
@@ -0,0 +1,562 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "schema": "paired_ft_contrast_extra.v1",
3
+ "dataset": "ye2026_sepsis",
4
+ "design": "scored",
5
+ "unit": "strict",
6
+ "written_utc": "2026-10-12T15:21:23.484693+00:00",
7
+ "command": [
8
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
9
+ "--support-manifest",
10
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw0/support.json",
11
+ "--out",
12
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0",
13
+ "--action",
14
+ "all",
15
+ "--threads",
16
+ "4",
17
+ "--arm",
18
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
19
+ "--arm",
20
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
21
+ "--arm",
22
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
23
+ "--arm",
24
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
25
+ "--arm",
26
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
27
+ ],
28
+ "threads": 4,
29
+ "donors": [
30
+ "Abd-PS04",
31
+ "Abd-PS05",
32
+ "Abd-PS07",
33
+ "Abd-PS19",
34
+ "Abd-PS20",
35
+ "Abd-PS23",
36
+ "Abd-PS27",
37
+ "Abd-S102",
38
+ "Abd-S103",
39
+ "Abd-S120",
40
+ "Abd-S123",
41
+ "Abd-S156",
42
+ "Abd-S39",
43
+ "Abd-S42",
44
+ "Abd-S47",
45
+ "Abd-S51",
46
+ "Abd-S54",
47
+ "Abd-S57",
48
+ "Abd-S79",
49
+ "Abd-S83",
50
+ "Abd-S98",
51
+ "HC01",
52
+ "HC05",
53
+ "HC09",
54
+ "HC12",
55
+ "HC13",
56
+ "HC16",
57
+ "IC10",
58
+ "IC15",
59
+ "IC16",
60
+ "IC19",
61
+ "IC22",
62
+ "IC23",
63
+ "PHC01",
64
+ "PHC02",
65
+ "PHC03",
66
+ "PHC05",
67
+ "PIC01",
68
+ "PIC02",
69
+ "PIC04",
70
+ "PIC05",
71
+ "Res-PS02",
72
+ "Res-PS03",
73
+ "Res-PS12",
74
+ "Res-PS16",
75
+ "Res-PS21",
76
+ "Res-PS22",
77
+ "Res-PS25",
78
+ "Res-PS26",
79
+ "Res-S10",
80
+ "Res-S125",
81
+ "Res-S127",
82
+ "Res-S136",
83
+ "Res-S139",
84
+ "Res-S146",
85
+ "Res-S149",
86
+ "Res-S164",
87
+ "Res-S166",
88
+ "Res-S174",
89
+ "Res-S177",
90
+ "Res-S184",
91
+ "Res-S19",
92
+ "Res-S26",
93
+ "Res-S40",
94
+ "Res-S87",
95
+ "Skin-S140",
96
+ "Skin-S142",
97
+ "Skin-S152",
98
+ "Skin-S38",
99
+ "Skin-S43",
100
+ "Skin-S46",
101
+ "Skin-S52",
102
+ "Uri-S134",
103
+ "Uri-S147",
104
+ "Uri-S157",
105
+ "Uri-S20",
106
+ "Uri-S93"
107
+ ],
108
+ "n_samples": 77,
109
+ "contrast": {
110
+ "case_groups": [
111
+ "adult_sepsis",
112
+ "ped_sepsis"
113
+ ],
114
+ "control_groups": [
115
+ "adult_HC",
116
+ "adult_ICU_ctrl",
117
+ "ped_HC",
118
+ "ped_ICU_ctrl"
119
+ ],
120
+ "n_case_donors": 57,
121
+ "n_control_donors": 20
122
+ },
123
+ "calls": {
124
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score": {
125
+ "arms": [
126
+ "lora",
127
+ "pairedcal",
128
+ "scsemi",
129
+ "raw",
130
+ "refcal"
131
+ ],
132
+ "summary_sha256": "841049689ef4839a90ab6c90cf5b456aadf875104ef82c62aea0bba548dcf742",
133
+ "contrast_csv_sha256": "a12cf00569fe17ef31e4dc87c286eff3bcba4af502264d16670d95fd23fd9dbd"
134
+ }
135
+ },
136
+ "notes": {
137
+ "source_tree": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores"
138
+ },
139
+ "reference_sha256": "bac12da8a241652cb75100a1b082b2be56806c9bf2fd20ce6f927f19683ea5b8",
140
+ "deg_reference": {
141
+ "source": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scoring_cache/ye2026_sepsis/deg_reference.npz",
142
+ "sha256": "9886ea64da90b1db6a07984d5d61d7dab04ee0beee7d4094ee3672316c2691d0"
143
+ },
144
+ "gene_exclusion": null,
145
+ "n_genes_disease_scores": 5975,
146
+ "genes_per_type": {
147
+ "T cell": 3259,
148
+ "B cell": 3304,
149
+ "Monocyte": 3285,
150
+ "NK cell": 3226
151
+ },
152
+ "arms": {
153
+ "lora": {
154
+ "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score",
155
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
156
+ "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
157
+ "npz_sha256": "823ee652c0cb8be8f822bd48bbdb4d4368b8aca5a075f423159acc3c66be8842",
158
+ "receipt_verified": true,
159
+ "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/ye2026_sepsis/disease/draw0/test_raw.npz",
160
+ "condition_sha256": "ae163d5eb1531842e2acea7db21a0a500f7642767566cdc639be42951543bba9",
161
+ "condition_label": "test_raw.npz@ae163d5e",
162
+ "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/ye2026_sepsis/disease/draw0/test_raw.npz",
163
+ "condition_key": "bcast:ae163d5eb1531842",
164
+ "n_generated_cells": 115500,
165
+ "label": "lora",
166
+ "seconds": 12.2
167
+ },
168
+ "pairedcal": {
169
+ "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score",
170
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
171
+ "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
172
+ "npz_sha256": "ee533342c8f2eb0518ead360fc788db7864238e3e48146c6a6e85953543308b0",
173
+ "receipt_verified": true,
174
+ "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/ye2026_sepsis/disease/draw0/test_cal.npz",
175
+ "condition_sha256": "e60564d1fa5edb4cd0bfac405e6ce84aa4a810af06ee0a2d16187219f768baaa",
176
+ "condition_label": "test_cal.npz@e60564d1",
177
+ "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/ye2026_sepsis/disease/draw0/test_cal.npz",
178
+ "condition_key": "bcast:e60564d1fa5edb4c",
179
+ "n_generated_cells": 115500,
180
+ "label": "pairedcal",
181
+ "seconds": 11.8
182
+ },
183
+ "scsemi": {
184
+ "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score",
185
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
186
+ "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
187
+ "npz_sha256": "80d99f5363d0fd7b967070fe1e8e716a05c86869edd31757c4e7cac5bf7ef29f",
188
+ "receipt_verified": true,
189
+ "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/fewshot_n5/draw0/test_raw.npz",
190
+ "condition_sha256": "ae163d5eb1531842e2acea7db21a0a500f7642767566cdc639be42951543bba9",
191
+ "condition_label": "test_raw.npz@ae163d5e",
192
+ "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/fewshot_n5/draw0/test_raw.npz",
193
+ "condition_key": "bcast:ae163d5eb1531842",
194
+ "n_generated_cells": 115500,
195
+ "label": "scsemi",
196
+ "seconds": 9.1
197
+ },
198
+ "raw": {
199
+ "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score",
200
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
201
+ "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
202
+ "npz_sha256": "665afa80f7749e56ee7a1c60d8452bff22a53e7bfcf87254c8e92d4d79c62b2a",
203
+ "receipt_verified": true,
204
+ "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/ye2026_sepsis/conditions_raw.npz",
205
+ "condition_sha256": "36add186da47d10c067d7a1f0641fabf3ddba64d5e65168c5975e1e3a448c9cd",
206
+ "condition_label": "conditions_raw.npz@36add186",
207
+ "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/ye2026_sepsis/conditions_raw.npz",
208
+ "condition_key": "bcast:36add186da47d10c",
209
+ "n_generated_cells": 115500,
210
+ "label": "raw",
211
+ "seconds": 13.8
212
+ },
213
+ "refcal": {
214
+ "call": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score",
215
+ "npz": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz",
216
+ "npz_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz",
217
+ "npz_sha256": "64784052e0289e347e2799523b4aa4ab07b16ddba6a54353a6011d9e77852891",
218
+ "receipt_verified": true,
219
+ "condition": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/ye2026_sepsis/conditions_refcal.npz",
220
+ "condition_sha256": "3886924bfe4926914677850db7dac8a77a38bb0c0fc1a30ee663b2587eabc7dd",
221
+ "condition_label": "conditions_refcal.npz@3886924b",
222
+ "condition_read_from": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/data/external_refcal/ye2026_sepsis/conditions_refcal.npz",
223
+ "condition_key": "bcast:3886924bfe492691",
224
+ "n_generated_cells": 115500,
225
+ "label": "refcal",
226
+ "seconds": 12.2
227
+ }
228
+ },
229
+ "observed_cells": {
230
+ "inputs_sha256": {
231
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/cells_panel6k.npz": "c814b53d04ffdbe8e257f1fb35df80e7945479db95a924774522b9a967745280",
232
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/cells_obs.parquet": "f21b34faaa06d3ba71f2538ec7367836879d59a5c44a820ad8e6ad90bffd4eb7"
233
+ },
234
+ "labels_sha256": "ab27c027a75b7cd47ec8267d4b33bfe41e8cb6ab64190a3592db1cffa2a73ea7",
235
+ "n_cells_4types_scored": 525088
236
+ },
237
+ "params": {
238
+ "split_seeds": [
239
+ 20260926,
240
+ 20260927,
241
+ 20260928,
242
+ 20260929,
243
+ 20260930
244
+ ],
245
+ "split_rule": "per scored sample x contrast type: permutation from default_rng([seed, uint64 LE of sha256('<sample>|<type>')[:8]]) of its cells in canonical order; half A = first floor(n/2) positions, half B = the rest",
246
+ "cat_ks": [
247
+ 10,
248
+ 20,
249
+ 50,
250
+ 100,
251
+ 200,
252
+ 500
253
+ ],
254
+ "rbo_p": 0.98,
255
+ "limma_filters": [
256
+ "nonzero",
257
+ "filterByExpr"
258
+ ],
259
+ "primary_filter": "nonzero",
260
+ "fdr": 0.05,
261
+ "top_n": 50,
262
+ "min_detect_frac": 0.01,
263
+ "poisson_seed": 20260916,
264
+ "repro_tol": 1e-09
265
+ },
266
+ "limma": {
267
+ "rscript": "/home/sj_server_1/miniforge3/bin/Rscript",
268
+ "versions": [
269
+ "R version 4.5.2 (2025-10-31)",
270
+ "limma 3.66.0",
271
+ "edgeR 4.8.1"
272
+ ],
273
+ "n_jobs": 68,
274
+ "n_not_ok": 0,
275
+ "seconds": 16.4,
276
+ "job_matrices": {
277
+ "obs|T cell": {
278
+ "key": "obs|T cell",
279
+ "n_samples": 77,
280
+ "n_case": 57,
281
+ "n_control": 20,
282
+ "n_zero_library_dropped": 0,
283
+ "defined": true
284
+ },
285
+ "obs|B cell": {
286
+ "key": "obs|B cell",
287
+ "n_samples": 77,
288
+ "n_case": 57,
289
+ "n_control": 20,
290
+ "n_zero_library_dropped": 0,
291
+ "defined": true
292
+ },
293
+ "obs|Monocyte": {
294
+ "key": "obs|Monocyte",
295
+ "n_samples": 77,
296
+ "n_case": 57,
297
+ "n_control": 20,
298
+ "n_zero_library_dropped": 0,
299
+ "defined": true
300
+ },
301
+ "obs|NK cell": {
302
+ "key": "obs|NK cell",
303
+ "n_samples": 77,
304
+ "n_case": 57,
305
+ "n_control": 20,
306
+ "n_zero_library_dropped": 0,
307
+ "defined": true
308
+ },
309
+ "obs|DC": {
310
+ "key": "obs|DC",
311
+ "n_samples": 74,
312
+ "n_case": 54,
313
+ "n_control": 20,
314
+ "n_zero_library_dropped": 0,
315
+ "defined": true
316
+ },
317
+ "gen:lora|T cell": {
318
+ "key": "gen:lora|T cell",
319
+ "n_samples": 77,
320
+ "n_case": 57,
321
+ "n_control": 20,
322
+ "n_zero_library_dropped": 0,
323
+ "defined": true
324
+ },
325
+ "gen:lora|B cell": {
326
+ "key": "gen:lora|B cell",
327
+ "n_samples": 77,
328
+ "n_case": 57,
329
+ "n_control": 20,
330
+ "n_zero_library_dropped": 0,
331
+ "defined": true
332
+ },
333
+ "gen:lora|Monocyte": {
334
+ "key": "gen:lora|Monocyte",
335
+ "n_samples": 73,
336
+ "n_case": 53,
337
+ "n_control": 20,
338
+ "n_zero_library_dropped": 0,
339
+ "defined": true
340
+ },
341
+ "gen:lora|NK cell": {
342
+ "key": "gen:lora|NK cell",
343
+ "n_samples": 77,
344
+ "n_case": 57,
345
+ "n_control": 20,
346
+ "n_zero_library_dropped": 0,
347
+ "defined": true
348
+ },
349
+ "gen:lora|DC": {
350
+ "key": "gen:lora|DC",
351
+ "n_samples": 50,
352
+ "n_case": 34,
353
+ "n_control": 16,
354
+ "n_zero_library_dropped": 0,
355
+ "defined": true
356
+ },
357
+ "bcast:ae163d5eb1531842": {
358
+ "key": "bcast:ae163d5eb1531842",
359
+ "n_samples": 77,
360
+ "n_case": 57,
361
+ "n_control": 20,
362
+ "n_zero_library_dropped": 0,
363
+ "defined": true
364
+ },
365
+ "gen:pairedcal|T cell": {
366
+ "key": "gen:pairedcal|T cell",
367
+ "n_samples": 77,
368
+ "n_case": 57,
369
+ "n_control": 20,
370
+ "n_zero_library_dropped": 0,
371
+ "defined": true
372
+ },
373
+ "gen:pairedcal|B cell": {
374
+ "key": "gen:pairedcal|B cell",
375
+ "n_samples": 77,
376
+ "n_case": 57,
377
+ "n_control": 20,
378
+ "n_zero_library_dropped": 0,
379
+ "defined": true
380
+ },
381
+ "gen:pairedcal|Monocyte": {
382
+ "key": "gen:pairedcal|Monocyte",
383
+ "n_samples": 76,
384
+ "n_case": 56,
385
+ "n_control": 20,
386
+ "n_zero_library_dropped": 0,
387
+ "defined": true
388
+ },
389
+ "gen:pairedcal|NK cell": {
390
+ "key": "gen:pairedcal|NK cell",
391
+ "n_samples": 77,
392
+ "n_case": 57,
393
+ "n_control": 20,
394
+ "n_zero_library_dropped": 0,
395
+ "defined": true
396
+ },
397
+ "gen:pairedcal|DC": {
398
+ "key": "gen:pairedcal|DC",
399
+ "n_samples": 75,
400
+ "n_case": 55,
401
+ "n_control": 20,
402
+ "n_zero_library_dropped": 0,
403
+ "defined": true
404
+ },
405
+ "bcast:e60564d1fa5edb4c": {
406
+ "key": "bcast:e60564d1fa5edb4c",
407
+ "n_samples": 77,
408
+ "n_case": 57,
409
+ "n_control": 20,
410
+ "n_zero_library_dropped": 0,
411
+ "defined": true
412
+ },
413
+ "gen:scsemi|T cell": {
414
+ "key": "gen:scsemi|T cell",
415
+ "n_samples": 77,
416
+ "n_case": 57,
417
+ "n_control": 20,
418
+ "n_zero_library_dropped": 0,
419
+ "defined": true
420
+ },
421
+ "gen:scsemi|B cell": {
422
+ "key": "gen:scsemi|B cell",
423
+ "n_samples": 71,
424
+ "n_case": 52,
425
+ "n_control": 19,
426
+ "n_zero_library_dropped": 0,
427
+ "defined": true
428
+ },
429
+ "gen:scsemi|Monocyte": {
430
+ "key": "gen:scsemi|Monocyte",
431
+ "n_samples": 66,
432
+ "n_case": 47,
433
+ "n_control": 19,
434
+ "n_zero_library_dropped": 0,
435
+ "defined": true
436
+ },
437
+ "gen:scsemi|NK cell": {
438
+ "key": "gen:scsemi|NK cell",
439
+ "n_samples": 57,
440
+ "n_case": 42,
441
+ "n_control": 15,
442
+ "n_zero_library_dropped": 0,
443
+ "defined": true
444
+ },
445
+ "gen:scsemi|DC": {
446
+ "key": "gen:scsemi|DC",
447
+ "n_samples": 68,
448
+ "n_case": 51,
449
+ "n_control": 17,
450
+ "n_zero_library_dropped": 0,
451
+ "defined": true
452
+ },
453
+ "gen:raw|T cell": {
454
+ "key": "gen:raw|T cell",
455
+ "n_samples": 77,
456
+ "n_case": 57,
457
+ "n_control": 20,
458
+ "n_zero_library_dropped": 0,
459
+ "defined": true
460
+ },
461
+ "gen:raw|B cell": {
462
+ "key": "gen:raw|B cell",
463
+ "n_samples": 77,
464
+ "n_case": 57,
465
+ "n_control": 20,
466
+ "n_zero_library_dropped": 0,
467
+ "defined": true
468
+ },
469
+ "gen:raw|Monocyte": {
470
+ "key": "gen:raw|Monocyte",
471
+ "n_samples": 77,
472
+ "n_case": 57,
473
+ "n_control": 20,
474
+ "n_zero_library_dropped": 0,
475
+ "defined": true
476
+ },
477
+ "gen:raw|NK cell": {
478
+ "key": "gen:raw|NK cell",
479
+ "n_samples": 77,
480
+ "n_case": 57,
481
+ "n_control": 20,
482
+ "n_zero_library_dropped": 0,
483
+ "defined": true
484
+ },
485
+ "gen:raw|DC": {
486
+ "key": "gen:raw|DC",
487
+ "n_samples": 77,
488
+ "n_case": 57,
489
+ "n_control": 20,
490
+ "n_zero_library_dropped": 0,
491
+ "defined": true
492
+ },
493
+ "bcast:36add186da47d10c": {
494
+ "key": "bcast:36add186da47d10c",
495
+ "n_samples": 77,
496
+ "n_case": 57,
497
+ "n_control": 20,
498
+ "n_zero_library_dropped": 0,
499
+ "defined": true
500
+ },
501
+ "gen:refcal|T cell": {
502
+ "key": "gen:refcal|T cell",
503
+ "n_samples": 77,
504
+ "n_case": 57,
505
+ "n_control": 20,
506
+ "n_zero_library_dropped": 0,
507
+ "defined": true
508
+ },
509
+ "gen:refcal|B cell": {
510
+ "key": "gen:refcal|B cell",
511
+ "n_samples": 77,
512
+ "n_case": 57,
513
+ "n_control": 20,
514
+ "n_zero_library_dropped": 0,
515
+ "defined": true
516
+ },
517
+ "gen:refcal|Monocyte": {
518
+ "key": "gen:refcal|Monocyte",
519
+ "n_samples": 77,
520
+ "n_case": 57,
521
+ "n_control": 20,
522
+ "n_zero_library_dropped": 0,
523
+ "defined": true
524
+ },
525
+ "gen:refcal|NK cell": {
526
+ "key": "gen:refcal|NK cell",
527
+ "n_samples": 77,
528
+ "n_case": 57,
529
+ "n_control": 20,
530
+ "n_zero_library_dropped": 0,
531
+ "defined": true
532
+ },
533
+ "gen:refcal|DC": {
534
+ "key": "gen:refcal|DC",
535
+ "n_samples": 77,
536
+ "n_case": 57,
537
+ "n_control": 20,
538
+ "n_zero_library_dropped": 0,
539
+ "defined": true
540
+ },
541
+ "bcast:3886924bfe492691": {
542
+ "key": "bcast:3886924bfe492691",
543
+ "n_samples": 77,
544
+ "n_case": 57,
545
+ "n_control": 20,
546
+ "n_zero_library_dropped": 0,
547
+ "defined": true
548
+ }
549
+ }
550
+ },
551
+ "repro_all_pass": true,
552
+ "split_half_seconds": 11.0,
553
+ "fetched_from_server2": [],
554
+ "code_sha256": {
555
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/contrast_extra.py": "b1ae7ded945177e61c1b2971c419c3adf5f9eb5e8868d427d1ba9d0f15fbf482",
556
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/contrast_extra_limma.R": "f0685f68ddfc00c01fc842073950981c176d980194de2aa70e324f197989f7dc",
557
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
558
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
559
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/bulk2sc-paper/scripts/evaluate_generated_vs_truth.py": "48b12d794782b840838853e93e0fc55fab00532c4b3698f4588e926b985d2881"
560
+ },
561
+ "seconds": 87.0
562
+ }
paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/strict_snapshot/ye2026_sepsis/draw0/scores/ye2026_sepsis/disease/draw0/extras/ye2026_sepsis/strict/manifest.json ADDED
@@ -0,0 +1,153 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "schema": "paired_ft_extra_metrics.v1",
3
+ "dataset": "ye2026_sepsis",
4
+ "design": "scored",
5
+ "unit": "strict",
6
+ "written_utc": "2026-10-12T15:19:56.432719+00:00",
7
+ "command": [
8
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/tools/score_strict.py",
9
+ "--support-manifest",
10
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/protocol/splits/ye2026_sepsis/disease/draw0/support.json",
11
+ "--out",
12
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0",
13
+ "--action",
14
+ "all",
15
+ "--threads",
16
+ "4",
17
+ "--arm",
18
+ "lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/lora.npz",
19
+ "--arm",
20
+ "pairedcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/pairedcal.npz",
21
+ "--arm",
22
+ "scsemi=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/ye2026_sepsis/disease/draw0/scsemi.npz",
23
+ "--arm",
24
+ "raw=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/raw.npz",
25
+ "--arm",
26
+ "refcal=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/global/ye2026_sepsis/refcal.npz"
27
+ ],
28
+ "threads": 4,
29
+ "donors": [
30
+ "Abd-PS04",
31
+ "Abd-PS05",
32
+ "Abd-PS07",
33
+ "Abd-PS19",
34
+ "Abd-PS20",
35
+ "Abd-PS23",
36
+ "Abd-PS27",
37
+ "Abd-S102",
38
+ "Abd-S103",
39
+ "Abd-S120",
40
+ "Abd-S123",
41
+ "Abd-S156",
42
+ "Abd-S39",
43
+ "Abd-S42",
44
+ "Abd-S47",
45
+ "Abd-S51",
46
+ "Abd-S54",
47
+ "Abd-S57",
48
+ "Abd-S79",
49
+ "Abd-S83",
50
+ "Abd-S98",
51
+ "HC01",
52
+ "HC05",
53
+ "HC09",
54
+ "HC12",
55
+ "HC13",
56
+ "HC16",
57
+ "IC10",
58
+ "IC15",
59
+ "IC16",
60
+ "IC19",
61
+ "IC22",
62
+ "IC23",
63
+ "PHC01",
64
+ "PHC02",
65
+ "PHC03",
66
+ "PHC05",
67
+ "PIC01",
68
+ "PIC02",
69
+ "PIC04",
70
+ "PIC05",
71
+ "Res-PS02",
72
+ "Res-PS03",
73
+ "Res-PS12",
74
+ "Res-PS16",
75
+ "Res-PS21",
76
+ "Res-PS22",
77
+ "Res-PS25",
78
+ "Res-PS26",
79
+ "Res-S10",
80
+ "Res-S125",
81
+ "Res-S127",
82
+ "Res-S136",
83
+ "Res-S139",
84
+ "Res-S146",
85
+ "Res-S149",
86
+ "Res-S164",
87
+ "Res-S166",
88
+ "Res-S174",
89
+ "Res-S177",
90
+ "Res-S184",
91
+ "Res-S19",
92
+ "Res-S26",
93
+ "Res-S40",
94
+ "Res-S87",
95
+ "Skin-S140",
96
+ "Skin-S142",
97
+ "Skin-S152",
98
+ "Skin-S38",
99
+ "Skin-S43",
100
+ "Skin-S46",
101
+ "Skin-S52",
102
+ "Uri-S134",
103
+ "Uri-S147",
104
+ "Uri-S157",
105
+ "Uri-S20",
106
+ "Uri-S93"
107
+ ],
108
+ "n_samples": 77,
109
+ "calls": {
110
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/ye2026_sepsis/disease/draw0/score": {
111
+ "arms": [
112
+ "lora",
113
+ "pairedcal",
114
+ "scsemi",
115
+ "raw",
116
+ "refcal"
117
+ ],
118
+ "summary_sha256": "841049689ef4839a90ab6c90cf5b456aadf875104ef82c62aea0bba548dcf742"
119
+ }
120
+ },
121
+ "reference_sha256": "bac12da8a241652cb75100a1b082b2be56806c9bf2fd20ce6f927f19683ea5b8",
122
+ "bandwidth_m": 27.70796379267508,
123
+ "params": {
124
+ "seed": 20261001,
125
+ "ks": [
126
+ 3,
127
+ 5,
128
+ 10
129
+ ],
130
+ "knn_c2st_k": 5,
131
+ "rf_trees": 300,
132
+ "cv_folds": 5,
133
+ "bw_multiples": [
134
+ 0.5,
135
+ 1.0,
136
+ 2.0
137
+ ],
138
+ "bw_max_cells": 4000,
139
+ "en_pcs": 100,
140
+ "en_lb_max_queries_all_cells": 20000,
141
+ "en_all_cells": true
142
+ },
143
+ "n_representative_rows": null,
144
+ "fetched_from_server2": [],
145
+ "code_sha256": {
146
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/extra_metrics.py": "e76a6cd4c1c5ef7184e97755edcd0f48726b56ba251545a5b5a4b12bb766b0c2",
147
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
148
+ "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
149
+ "/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"
150
+ },
151
+ "seconds": 1374.6,
152
+ "max_abs_diff_k10_pooled": 0.0
153
+ }