Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/0115582b78f7a78b/manifest.json +218 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/67b954601aedb8f1/score.json +61 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/77dd1b666eafe44a/summary.json +2147 -0
- paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/94a28a61d9ab7598/individual_donor_bootstrap_2000.csv +29 -0
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/0115582b78f7a78b/manifest.json
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| 1 |
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{
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| 2 |
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"schema": "paired_ft_extra_metrics.v1",
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| 3 |
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"dataset": "imperial_eskd",
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| 4 |
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"design": "scored",
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| 5 |
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"unit": "strict",
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| 6 |
+
"written_utc": "2026-10-13T10:44:42.352856+00:00",
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| 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/imperial_eskd/disease/draw2/support.json",
|
| 11 |
+
"--out",
|
| 12 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw2",
|
| 13 |
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"--action",
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| 14 |
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"all",
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| 15 |
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"--threads",
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| 16 |
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"4",
|
| 17 |
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"--arm",
|
| 18 |
+
"lora=/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/generated/imperial_eskd/disease/draw2/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/imperial_eskd/disease/draw2/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/imperial_eskd/disease/draw2/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/imperial_eskd/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/imperial_eskd/refcal.npz"
|
| 27 |
+
],
|
| 28 |
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"threads": 4,
|
| 29 |
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"donors": [
|
| 30 |
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"C20_1004",
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| 31 |
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"C20_1404",
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| 32 |
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"C21_1004",
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"C21_1704",
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"C21_2504",
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| 35 |
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"C23_2204",
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| 36 |
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"C31_1304",
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| 37 |
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"C31_2004",
|
| 38 |
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"C31_2704",
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| 39 |
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"C33_1401",
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| 40 |
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"C33_1601",
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| 41 |
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"C33_1901",
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| 42 |
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"C34_1404",
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| 43 |
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"C34_2104",
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| 44 |
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"C34_2504",
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| 45 |
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"C36_1504",
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| 46 |
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"C36_1704",
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| 47 |
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"C36_2104",
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| 48 |
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"C40_1504",
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| 49 |
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"C40_2204",
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| 50 |
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"C40_0105",
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| 51 |
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"C42_1504",
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| 52 |
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"C42_2204",
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| 53 |
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"C42_2704",
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| 54 |
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"C58_1604",
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| 55 |
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"C58_2501",
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| 56 |
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"C58_2901",
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| 57 |
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"C58_0102",
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| 58 |
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"C58_0402",
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| 59 |
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"C58_1003",
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"C63_1704",
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"C63_2404",
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| 62 |
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"C63_2904",
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| 63 |
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"C65_1704",
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"C65_2104",
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"C65_2504",
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| 66 |
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"C69_1804",
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"C82_2504",
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"C93_2104",
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"C93_2704",
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"C93_0405",
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"C103_2204",
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"C104_2204",
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"C106_2204",
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"C108_2204",
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"C108_1501",
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"C108_1801",
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"C108_2201",
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"C113_0605",
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"C123_2404",
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"C123_2904",
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"C123_0505",
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"C124_2404",
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"C124_2704",
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"C124_0105",
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"C126_2504",
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"C126_3004",
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"C126_0605",
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"C127_2504",
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"C127_0405",
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"C127_1105",
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"C128_2504",
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"C128_0405",
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"C128_1105",
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"C132_2804",
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"C132_0205",
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"C132_1105",
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"C137_3004",
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"C137_2502",
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"C138_3004",
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"C138_2301",
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"C138_3001",
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"C138_0202",
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"C138_0402",
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"C140_3004",
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"C140_2801",
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"C140_3001",
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"C140_0202",
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"C140_0402",
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"C140_0602",
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"C140_0902",
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"C140_1103",
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"C141_2001",
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"C141_2201",
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"C141_3001",
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| 115 |
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"C141_0202",
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"C142_3004",
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"C145_3004",
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| 118 |
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"C145_0701",
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| 119 |
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"C145_1201",
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| 120 |
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"C145_1401",
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| 121 |
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"C145_1901",
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| 122 |
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"C145_2301",
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| 123 |
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"C146_3004",
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| 124 |
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"C146_1201",
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| 125 |
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"C146_1401",
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| 126 |
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"C146_1601",
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| 127 |
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"C146_1901",
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| 128 |
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"C146_2301",
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| 129 |
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"C146_2701",
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| 130 |
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"C146_2502",
|
| 131 |
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"C147_3004",
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| 132 |
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"C147_1401",
|
| 133 |
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"C147_1901",
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| 134 |
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"C152_0405",
|
| 135 |
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"C161_1105",
|
| 136 |
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"C167_1205",
|
| 137 |
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"C168_1205",
|
| 138 |
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"C168_2001",
|
| 139 |
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"C168_2301",
|
| 140 |
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"C168_3001",
|
| 141 |
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"C168_0202",
|
| 142 |
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"C168_0403",
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| 143 |
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"C169_1205",
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| 144 |
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"C169_2001",
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| 145 |
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"C169_2301",
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| 146 |
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"C169_0202",
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| 147 |
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"C169_0403",
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| 148 |
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"C170_1205",
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| 149 |
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"C170_2301",
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| 150 |
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"C170_0202",
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| 151 |
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"C170_0402",
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| 152 |
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"C170_0403",
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| 153 |
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"C190_2605",
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"C190_2901",
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"C190_0102",
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| 156 |
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"C190_0302",
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| 157 |
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"C190_0502",
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| 158 |
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"C190_0802",
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| 159 |
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"C190_1002",
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| 160 |
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"C190_0903",
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| 161 |
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"C193_2605",
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| 162 |
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"C195_2605",
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| 163 |
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"C197_2605",
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| 164 |
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"C212_2705",
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| 165 |
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"C214_2705",
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| 166 |
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"C234_2805",
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| 167 |
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"C237_2805",
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| 168 |
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"C238_2905",
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| 169 |
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"C240_2905",
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| 170 |
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"C246_2905",
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| 171 |
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"C251_2905"
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| 172 |
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],
|
| 173 |
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"n_samples": 142,
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| 174 |
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"calls": {
|
| 175 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw2/score": {
|
| 176 |
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"arms": [
|
| 177 |
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"lora",
|
| 178 |
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"pairedcal",
|
| 179 |
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"scsemi",
|
| 180 |
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"raw",
|
| 181 |
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"refcal"
|
| 182 |
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],
|
| 183 |
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"summary_sha256": "7336fa367195565c2cd750ad4cbc2266c8b2c7a9980b1b8fb2b7711101e857fe"
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| 184 |
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}
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| 185 |
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},
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| 186 |
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"reference_sha256": "34b4caa3f8a60b46d5faf58f09cdaa5622bcce19e4c45d9902a711fead96375e",
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"bandwidth_m": 25.735726960115755,
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"params": {
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| 189 |
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"seed": 20261001,
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| 190 |
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"ks": [
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| 191 |
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|
| 192 |
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| 193 |
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| 194 |
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],
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| 195 |
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"knn_c2st_k": 5,
|
| 196 |
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"rf_trees": 300,
|
| 197 |
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"cv_folds": 5,
|
| 198 |
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"bw_multiples": [
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| 199 |
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0.5,
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| 200 |
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| 201 |
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| 202 |
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],
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| 203 |
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"bw_max_cells": 4000,
|
| 204 |
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"en_pcs": 100,
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| 205 |
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"en_lb_max_queries_all_cells": 20000,
|
| 206 |
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"en_all_cells": true
|
| 207 |
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},
|
| 208 |
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"n_representative_rows": null,
|
| 209 |
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"fetched_from_server2": [],
|
| 210 |
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"code_sha256": {
|
| 211 |
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"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/extra_metrics.py": "e76a6cd4c1c5ef7184e97755edcd0f48726b56ba251545a5b5a4b12bb766b0c2",
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| 212 |
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"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/ft_common.py": "4a6366b0f22208cd58714fc0261b8840c643b9d4569704d560cfd93534cbc747",
|
| 213 |
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"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
|
| 214 |
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"/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"
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| 215 |
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},
|
| 216 |
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"seconds": 2383.6,
|
| 217 |
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"max_abs_diff_k10_pooled": 0.0
|
| 218 |
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}
|
paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/67b954601aedb8f1/score.json
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ADDED
|
@@ -0,0 +1,2147 @@
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|
| 1 |
+
{
|
| 2 |
+
"schema": "paired_ft_scores.v1",
|
| 3 |
+
"dataset": "imperial_eskd",
|
| 4 |
+
"written_utc": "2026-10-13T05:23:01.417758+00:00",
|
| 5 |
+
"command": [
|
| 6 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/tools/score_ft.py",
|
| 7 |
+
"--dataset",
|
| 8 |
+
"imperial_eskd",
|
| 9 |
+
"--out",
|
| 10 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw1/score",
|
| 11 |
+
"--donors",
|
| 12 |
+
"/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paper_figures_strictpairs_20261012/scores/imperial_eskd/disease/draw1/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/imperial_eskd/disease/draw1/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/imperial_eskd/disease/draw1/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/imperial_eskd/disease/draw1/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/imperial_eskd/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/imperial_eskd/refcal.npz",
|
| 25 |
+
"--case-groups",
|
| 26 |
+
"covid_positive",
|
| 27 |
+
"--control-groups",
|
| 28 |
+
"covid_negative"
|
| 29 |
+
],
|
| 30 |
+
"arms": [
|
| 31 |
+
"lora",
|
| 32 |
+
"pairedcal",
|
| 33 |
+
"scsemi",
|
| 34 |
+
"raw",
|
| 35 |
+
"refcal"
|
| 36 |
+
],
|
| 37 |
+
"donors": [
|
| 38 |
+
"C20_1004",
|
| 39 |
+
"C20_1404",
|
| 40 |
+
"C21_1004",
|
| 41 |
+
"C21_1704",
|
| 42 |
+
"C21_2504",
|
| 43 |
+
"C23_2204",
|
| 44 |
+
"C33_1401",
|
| 45 |
+
"C33_1601",
|
| 46 |
+
"C33_1901",
|
| 47 |
+
"C34_1404",
|
| 48 |
+
"C34_2104",
|
| 49 |
+
"C34_2504",
|
| 50 |
+
"C36_1504",
|
| 51 |
+
"C36_1704",
|
| 52 |
+
"C36_2104",
|
| 53 |
+
"C40_1504",
|
| 54 |
+
"C40_2204",
|
| 55 |
+
"C40_0105",
|
| 56 |
+
"C42_1504",
|
| 57 |
+
"C42_2204",
|
| 58 |
+
"C42_2704",
|
| 59 |
+
"C58_1604",
|
| 60 |
+
"C58_2501",
|
| 61 |
+
"C58_2901",
|
| 62 |
+
"C58_0102",
|
| 63 |
+
"C58_0402",
|
| 64 |
+
"C58_1003",
|
| 65 |
+
"C60_2504",
|
| 66 |
+
"C63_1704",
|
| 67 |
+
"C63_2404",
|
| 68 |
+
"C63_2904",
|
| 69 |
+
"C69_1804",
|
| 70 |
+
"C82_2504",
|
| 71 |
+
"C85_2004",
|
| 72 |
+
"C93_2104",
|
| 73 |
+
"C93_2704",
|
| 74 |
+
"C93_0405",
|
| 75 |
+
"C103_2204",
|
| 76 |
+
"C104_2204",
|
| 77 |
+
"C106_2204",
|
| 78 |
+
"C108_2204",
|
| 79 |
+
"C108_1501",
|
| 80 |
+
"C108_1801",
|
| 81 |
+
"C108_2201",
|
| 82 |
+
"C113_0605",
|
| 83 |
+
"C123_2404",
|
| 84 |
+
"C123_2904",
|
| 85 |
+
"C123_0505",
|
| 86 |
+
"C124_2404",
|
| 87 |
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paper-releases/pbisc-diffusion/updates/20261015T121654Z-x1-nine-core40-deck/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/x1_priority_20261015/builds/20261015T120743086141Z/sources/94a28a61d9ab7598/individual_donor_bootstrap_2000.csv
ADDED
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| 1 |
+
arm,metric,status,estimate,ci_low,ci_high,n_donors,n_boot,bootstrap_unit
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| 2 |
+
lora,comp_l1,ok,0.27181264827681734,0.2360751663474706,0.30755013020616406,4,2000,unique_donor_all_visits
|
| 3 |
+
lora,comp_l1_obs_loo_null,ok,0.3634285641471839,0.2823277246132213,0.4744704097690243,4,2000,unique_donor_all_visits
|
| 4 |
+
lora,coverage,ok,0.9616666666666666,0.9183333333333333,0.9899999999999999,4,2000,unique_donor_all_visits
|
| 5 |
+
lora,coverage_depth_matched,ok,0.9655555555555556,0.925,0.9988888888888889,4,2000,unique_donor_all_visits
|
| 6 |
+
lora,gen_B cell,ok,0.044361111111111066,0.024499999999999952,0.06422222222222218,4,2000,unique_donor_all_visits
|
| 7 |
+
lora,gen_DC,ok,0.022999999999999955,0.0159444444444444,0.029666666666666612,4,2000,unique_donor_all_visits
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| 8 |
+
lora,gen_Monocyte,ok,0.19355555555555554,0.11777777777777776,0.2850555555555555,4,2000,unique_donor_all_visits
|
| 9 |
+
lora,gen_NK cell,ok,0.06502777777777777,0.03561111111111109,0.09619444444444443,4,2000,unique_donor_all_visits
|
| 10 |
+
lora,gen_Other,ok,0.03313888888888885,0.027749999999999952,0.037055555555555536,4,2000,unique_donor_all_visits
|
| 11 |
+
lora,gen_T cell,ok,0.6409166666666667,0.52625,0.7107222222222223,4,2000,unique_donor_all_visits
|
| 12 |
+
lora,median_umi_gen,ok,472.5833333333333,415.16666666666663,530.0,4,2000,unique_donor_all_visits
|
| 13 |
+
lora,median_umi_obs,ok,505.0625,447.33333333333337,562.7916666666667,4,2000,unique_donor_all_visits
|
| 14 |
+
lora,mono_pct_gen,ok,19.355555555555554,11.777777777777779,28.505555555555553,4,2000,unique_donor_all_visits
|
| 15 |
+
lora,mono_pct_obs,ok,21.859692610326228,13.243292142721568,30.476093077930884,4,2000,unique_donor_all_visits
|
| 16 |
+
lora,n_generated_cells,ok,1500.0,1500.0,1500.0,4,2000,unique_donor_all_visits
|
| 17 |
+
lora,n_observed_cells,ok,9328.375,7652.375,10654.166666666668,4,2000,unique_donor_all_visits
|
| 18 |
+
lora,n_reference_cells,ok,150.0,150.0,150.0,4,2000,unique_donor_all_visits
|
| 19 |
+
lora,obs_B cell,ok,0.07530645885210874,0.04192867098351254,0.10868424672070492,4,2000,unique_donor_all_visits
|
| 20 |
+
lora,obs_DC,ok,0.015351639043526382,0.010630936676522765,0.019226964579214932,4,2000,unique_donor_all_visits
|
| 21 |
+
lora,obs_Monocyte,ok,0.21859692610326226,0.13243292142721563,0.3047609307793089,4,2000,unique_donor_all_visits
|
| 22 |
+
lora,obs_NK cell,ok,0.10953516536459751,0.07745352059554615,0.14161681013364885,4,2000,unique_donor_all_visits
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| 23 |
+
lora,obs_Other,ok,0.05338113204406115,0.023401521025234698,0.07501976652254831,4,2000,unique_donor_all_visits
|
| 24 |
+
lora,obs_T cell,ok,0.5278286785924438,0.4290086021069872,0.5932830183965533,4,2000,unique_donor_all_visits
|
| 25 |
+
lora,pb_own_rank,ok,2.75,1.4166666666666665,4.333333333333334,4,2000,unique_donor_all_visits
|
| 26 |
+
lora,pb_r,ok,0.863823778310286,0.8555672662563876,0.8720802903641844,4,2000,unique_donor_all_visits
|
| 27 |
+
lora,pb_top1,ok,0.41666666666666663,0.08333333333333333,0.8333333333333333,4,2000,unique_donor_all_visits
|
| 28 |
+
lora,precision,ok,1.0,1.0,1.0,4,2000,unique_donor_all_visits
|
| 29 |
+
lora,precision_depth_matched,ok,0.9947222222222222,0.9913888888888889,0.9972222222222222,4,2000,unique_donor_all_visits
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