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
fc35de0
·
verified ·
1 Parent(s): 36cbc4f

Archive 4 checkpoints (1-4)

Browse files
Files changed (4) hide show
  1. paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/headline.csv +6 -0
  2. paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/R.log +3 -0
  3. paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/jobs.csv +69 -0
  4. paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/limma_status.csv +69 -0
paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/headline.csv ADDED
@@ -0,0 +1,6 @@
 
 
 
 
 
 
 
1
+ dataset,design,unit,arm,label,role,condition,pearson_r,spearman_r,partial_r,broadcast_pearson_r,broadcast_spearman_r,splithalf_r_AB,splithalf_r_AB_sd,splithalf_spearman_AB,sb_reliability,noise_free_ceiling,r_generated_vs_halfB,r_broadcast_vs_halfB,welch_top50,welch_top50_max,welch_top50_chance,welch_top50_broadcast,welch_top50_broadcast_chance,welch_n_sig_obs,welch_n_sig_gen,welch_n_sig_broadcast_per_type,welch_types_scored,limma_top50,limma_top50_max,limma_top50_chance,limma_top50_broadcast,limma_top50_broadcast_chance,limma_n_sig_obs,limma_n_sig_gen,limma_n_sig_broadcast_per_type,limma_types_scored,limma_fbe_top50,limma_fbe_top50_max,limma_fbe_top50_chance,limma_fbe_top50_broadcast,limma_fbe_top50_broadcast_chance,limma_fbe_n_sig_obs,limma_fbe_n_sig_gen,limma_fbe_n_sig_broadcast_per_type,limma_fbe_types_scored,cat50,cat50_chance,cat100,cat100_chance,rbo,rbo_up_down,cat_types,broadcast_cat50,broadcast_cat50_chance,broadcast_cat100,broadcast_cat100_chance,broadcast_rbo,broadcast_rbo_up_down,broadcast_cat_types,repro_pass
2
+ ji2025_chili,fewshot,fewshot_n5/draw2,zs_raw,"Zero-shot, real bulk",zs_raw,all_usable_raw.npz@78d8ac58,0.13614408592709415,0.12014570959890039,0.0792074125381482,0.263723888008903,0.14170766049864245,0.8819545269091502,0.0025814526299489785,0.7653708591901631,0.9346860101107088,0.9663963551990097,0.1334993315473908,0.2571894046028982,0,250,0.1397199664163237,5,1.1396182091058642,2865,12,24,5,0,250,1.0115901743679427,11,1.6144591295666406,1285,600,34,5,1,250,1.8077906314097982,10,4.97244811536458,1153,49,31,5,0.004,0.008065583923494732,0.03,0.016131167846989463,0.011141921994604745,0.026023556754148625,5,0.036,0.004748409204607767,0.052000000000000005,0.009496818409215534,0.04828249267079398,0.042048515794741816,5,True
3
+ ji2025_chili,fewshot,fewshot_n5/draw2,zs_pseudo,"Zero-shot, sc pseudobulk input (reference)",other,all_usable_pseudo.npz@49033eab,0.19987110878639727,0.18393339433841424,0.06724834782333608,0.6608659162121641,0.5697283738234933,0.8819545269091502,0.0025814526299489785,0.7653708591901631,0.9346860101107088,0.9663963551990097,0.19425634014275378,0.6423096029404333,4,250,1.4954471606685578,43,2.303857200461055,2865,326,1311,5,2,250,1.2766563472480756,34,2.303857200461055,1285,793,248,5,5,250,6.014985024863225,80,7.602088076514363,1153,532,246,5,0.016,0.0068255995293699055,0.034,0.013651199058739811,0.03037901411534663,0.028728293861786103,5,0.384,0.00460771440092211,0.376,0.00921542880184422,0.1698963845731213,0.2943683455007018,5,True
4
+ ji2025_chili,fewshot,fewshot_n5/draw2,zs_cal,Zero-shot + calibration,zs_cal,test_cal.npz@16df3337,0.23055486304734635,0.21586387109666896,0.21130305450095233,0.21312508415156606,0.12866054960336462,0.8819545269091502,0.0025814526299489785,0.7653708591901631,0.9346860101107088,0.9663963551990097,0.22753924985634572,0.2084396067206339,0,250,0.0,2,0.28490455227646605,2865,0,6,5,0,250,0.0316055625790139,7,1.3770386693362524,1285,2,29,5,0,250,0.12376237623762376,3,2.985094635506455,1153,2,19,5,0.008,0.007898012221551813,0.024,0.015796024443103625,0.009553876314358733,0.03418765449417037,5,0.036,0.004748409204607767,0.052000000000000005,0.009496818409215534,0.05011176329191095,0.04258329330591023,5,True
5
+ ji2025_chili,fewshot,fewshot_n5/draw2,lora5,"LoRA, 5 donors",lora,test_raw.npz@70953ef3,0.28938101620694295,0.246724892097214,0.24803917247992743,0.263723888008903,0.14170766049864245,0.8819545269091502,0.0025814526299489785,0.7653708591901631,0.9346860101107088,0.9663963551990097,0.28347675946191486,0.2571894046028982,0,250,0.11192813988980918,5,1.1396182091058642,2865,7,24,5,1,250,1.639248706806381,11,1.6144591295666406,1285,1266,34,5,0,250,0.925238908685726,10,4.97244811536458,1153,23,31,5,0.036,0.007794859409146535,0.06200000000000001,0.01558971881829307,0.027617904095610334,0.06833458370775947,5,0.036,0.004748409204607767,0.052000000000000005,0.009496818409215534,0.04828249267079398,0.042048515794741816,5,True
6
+ ji2025_chili,fewshot,fewshot_n5/draw2,scsemi5,"scSemiProfiler, 5 donors",scsemi,test_raw.npz@70953ef3,0.18157664613193736,0.14677255187855778,0.0972712819270106,0.263723888008903,0.14170766049864245,0.8819545269091502,0.0025814526299489785,0.7653708591901631,0.9346860101107088,0.9663963551990097,0.17634198550398147,0.2571894046028982,0,250,0.0,5,1.1396182091058642,2865,0,24,5,0,250,3.461165268190662,11,1.6144591295666406,1285,343,34,5,0,250,3.677280335180354,10,4.97244811536458,1153,13,31,5,0.032,0.03290141393545122,0.05800000000000001,0.06580282787090244,0.016262190935306002,0.06243660475065203,5,0.036,0.004748409204607767,0.052000000000000005,0.009496818409215534,0.04828249267079398,0.042048515794741816,5,True
paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/R.log ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
+ limma jobs: 68 (68 ok)
2
+
3
+ --- stderr ---
paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/jobs.csv ADDED
@@ -0,0 +1,69 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ job,offset,n_samples,is_case,filter
2
+ obs|T cell|nonzero,0,26,11000111100000001111111111,nonzero
3
+ obs|T cell|filterByExpr,0,26,11000111100000001111111111,filterByExpr
4
+ obs|B cell|nonzero,149552,26,11000111100000001111111111,nonzero
5
+ obs|B cell|filterByExpr,149552,26,11000111100000001111111111,filterByExpr
6
+ obs|Monocyte|nonzero,299104,26,11000111100000001111111111,nonzero
7
+ obs|Monocyte|filterByExpr,299104,26,11000111100000001111111111,filterByExpr
8
+ obs|NK cell|nonzero,448656,26,11000111100000001111111111,nonzero
9
+ obs|NK cell|filterByExpr,448656,26,11000111100000001111111111,filterByExpr
10
+ obs|DC|nonzero,598208,24,110001111000000011111111,nonzero
11
+ obs|DC|filterByExpr,598208,24,110001111000000011111111,filterByExpr
12
+ gen:zs_raw|T cell|nonzero,736256,26,11000111100000001111111111,nonzero
13
+ gen:zs_raw|T cell|filterByExpr,736256,26,11000111100000001111111111,filterByExpr
14
+ gen:zs_raw|B cell|nonzero,885808,26,11000111100000001111111111,nonzero
15
+ gen:zs_raw|B cell|filterByExpr,885808,26,11000111100000001111111111,filterByExpr
16
+ gen:zs_raw|Monocyte|nonzero,1035360,26,11000111100000001111111111,nonzero
17
+ gen:zs_raw|Monocyte|filterByExpr,1035360,26,11000111100000001111111111,filterByExpr
18
+ gen:zs_raw|NK cell|nonzero,1184912,26,11000111100000001111111111,nonzero
19
+ gen:zs_raw|NK cell|filterByExpr,1184912,26,11000111100000001111111111,filterByExpr
20
+ gen:zs_raw|DC|nonzero,1334464,26,11000111100000001111111111,nonzero
21
+ gen:zs_raw|DC|filterByExpr,1334464,26,11000111100000001111111111,filterByExpr
22
+ bcast:78d8ac589dee9315|nonzero,1484016,26,11000111100000001111111111,nonzero
23
+ bcast:78d8ac589dee9315|filterByExpr,1484016,26,11000111100000001111111111,filterByExpr
24
+ gen:zs_pseudo|T cell|nonzero,1633568,26,11000111100000001111111111,nonzero
25
+ gen:zs_pseudo|T cell|filterByExpr,1633568,26,11000111100000001111111111,filterByExpr
26
+ gen:zs_pseudo|B cell|nonzero,1783120,26,11000111100000001111111111,nonzero
27
+ gen:zs_pseudo|B cell|filterByExpr,1783120,26,11000111100000001111111111,filterByExpr
28
+ gen:zs_pseudo|Monocyte|nonzero,1932672,26,11000111100000001111111111,nonzero
29
+ gen:zs_pseudo|Monocyte|filterByExpr,1932672,26,11000111100000001111111111,filterByExpr
30
+ gen:zs_pseudo|NK cell|nonzero,2082224,26,11000111100000001111111111,nonzero
31
+ gen:zs_pseudo|NK cell|filterByExpr,2082224,26,11000111100000001111111111,filterByExpr
32
+ gen:zs_pseudo|DC|nonzero,2231776,26,11000111100000001111111111,nonzero
33
+ gen:zs_pseudo|DC|filterByExpr,2231776,26,11000111100000001111111111,filterByExpr
34
+ bcast:49033eab3e3c50d0|nonzero,2381328,26,11000111100000001111111111,nonzero
35
+ bcast:49033eab3e3c50d0|filterByExpr,2381328,26,11000111100000001111111111,filterByExpr
36
+ gen:zs_cal|T cell|nonzero,2530880,26,11000111100000001111111111,nonzero
37
+ gen:zs_cal|T cell|filterByExpr,2530880,26,11000111100000001111111111,filterByExpr
38
+ gen:zs_cal|B cell|nonzero,2680432,26,11000111100000001111111111,nonzero
39
+ gen:zs_cal|B cell|filterByExpr,2680432,26,11000111100000001111111111,filterByExpr
40
+ gen:zs_cal|Monocyte|nonzero,2829984,26,11000111100000001111111111,nonzero
41
+ gen:zs_cal|Monocyte|filterByExpr,2829984,26,11000111100000001111111111,filterByExpr
42
+ gen:zs_cal|NK cell|nonzero,2979536,26,11000111100000001111111111,nonzero
43
+ gen:zs_cal|NK cell|filterByExpr,2979536,26,11000111100000001111111111,filterByExpr
44
+ gen:zs_cal|DC|nonzero,3129088,26,11000111100000001111111111,nonzero
45
+ gen:zs_cal|DC|filterByExpr,3129088,26,11000111100000001111111111,filterByExpr
46
+ bcast:16df33379a7def78|nonzero,3278640,26,11000111100000001111111111,nonzero
47
+ bcast:16df33379a7def78|filterByExpr,3278640,26,11000111100000001111111111,filterByExpr
48
+ gen:lora5|T cell|nonzero,3428192,26,11000111100000001111111111,nonzero
49
+ gen:lora5|T cell|filterByExpr,3428192,26,11000111100000001111111111,filterByExpr
50
+ gen:lora5|B cell|nonzero,3577744,26,11000111100000001111111111,nonzero
51
+ gen:lora5|B cell|filterByExpr,3577744,26,11000111100000001111111111,filterByExpr
52
+ gen:lora5|Monocyte|nonzero,3727296,26,11000111100000001111111111,nonzero
53
+ gen:lora5|Monocyte|filterByExpr,3727296,26,11000111100000001111111111,filterByExpr
54
+ gen:lora5|NK cell|nonzero,3876848,26,11000111100000001111111111,nonzero
55
+ gen:lora5|NK cell|filterByExpr,3876848,26,11000111100000001111111111,filterByExpr
56
+ gen:lora5|DC|nonzero,4026400,26,11000111100000001111111111,nonzero
57
+ gen:lora5|DC|filterByExpr,4026400,26,11000111100000001111111111,filterByExpr
58
+ bcast:70953ef3c751fa83|nonzero,4175952,26,11000111100000001111111111,nonzero
59
+ bcast:70953ef3c751fa83|filterByExpr,4175952,26,11000111100000001111111111,filterByExpr
60
+ gen:scsemi5|T cell|nonzero,4325504,26,11000111100000001111111111,nonzero
61
+ gen:scsemi5|T cell|filterByExpr,4325504,26,11000111100000001111111111,filterByExpr
62
+ gen:scsemi5|B cell|nonzero,4475056,23,11000111000000111111111,nonzero
63
+ gen:scsemi5|B cell|filterByExpr,4475056,23,11000111000000111111111,filterByExpr
64
+ gen:scsemi5|Monocyte|nonzero,4607352,25,1100011110000001111111111,nonzero
65
+ gen:scsemi5|Monocyte|filterByExpr,4607352,25,1100011110000001111111111,filterByExpr
66
+ gen:scsemi5|NK cell|nonzero,4751152,25,1100011110000001111111111,nonzero
67
+ gen:scsemi5|NK cell|filterByExpr,4751152,25,1100011110000001111111111,filterByExpr
68
+ gen:scsemi5|DC|nonzero,4894952,23,11000111000000111111111,nonzero
69
+ gen:scsemi5|DC|filterByExpr,4894952,23,11000111000000111111111,filterByExpr
paper-releases/pbisc-diffusion/updates/20261002T085943Z-deck-restructure-contrast-metrics-zeroshot-len/diffusion/dataset/server_1/model8/plans/paired_finetune_intradataset_20260927/scores_contrast/ji2025_chili/fewshot_n5/draw2/limma/limma_status.csv ADDED
@@ -0,0 +1,69 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ "job","status","n_tested","n_sig_fdr05","seconds"
2
+ "obs|T cell|nonzero","ok",5676,340,0.298
3
+ "obs|T cell|filterByExpr","ok",3509,405,0.147
4
+ "obs|B cell|nonzero","ok",5364,58,0.221
5
+ "obs|B cell|filterByExpr","ok",1737,78,0.075
6
+ "obs|Monocyte|nonzero","ok",5691,259,0.239
7
+ "obs|Monocyte|filterByExpr","ok",3014,358,0.123
8
+ "obs|NK cell|nonzero","ok",5482,112,0.229
9
+ "obs|NK cell|filterByExpr","ok",2742,141,0.114
10
+ "obs|DC|nonzero","ok",4980,516,0.192
11
+ "obs|DC|filterByExpr","ok",682,171,0.037
12
+ "gen:zs_raw|T cell|nonzero","ok",4233,0,0.169
13
+ "gen:zs_raw|T cell|filterByExpr","ok",1317,11,0.059
14
+ "gen:zs_raw|B cell|nonzero","ok",3134,1,0.152
15
+ "gen:zs_raw|B cell|filterByExpr","ok",696,1,0.038
16
+ "gen:zs_raw|Monocyte|nonzero","ok",4310,9,0.17
17
+ "gen:zs_raw|Monocyte|filterByExpr","ok",1576,36,0.068
18
+ "gen:zs_raw|NK cell|nonzero","ok",2807,590,0.11
19
+ "gen:zs_raw|NK cell|filterByExpr","ok",302,1,0.02
20
+ "gen:zs_raw|DC|nonzero","ok",2142,0,0.085
21
+ "gen:zs_raw|DC|filterByExpr","ok",122,0,0.016
22
+ "bcast:78d8ac589dee9315|nonzero","ok",5528,34,0.232
23
+ "bcast:78d8ac589dee9315|filterByExpr","ok",3851,31,0.154
24
+ "gen:zs_pseudo|T cell|nonzero","ok",4205,742,0.172
25
+ "gen:zs_pseudo|T cell|filterByExpr","ok",1692,398,0.073
26
+ "gen:zs_pseudo|B cell|nonzero","ok",3348,9,0.134
27
+ "gen:zs_pseudo|B cell|filterByExpr","ok",841,14,0.041
28
+ "gen:zs_pseudo|Monocyte|nonzero","ok",3863,33,0.157
29
+ "gen:zs_pseudo|Monocyte|filterByExpr","ok",1619,76,0.076
30
+ "gen:zs_pseudo|NK cell|nonzero","ok",3751,9,0.152
31
+ "gen:zs_pseudo|NK cell|filterByExpr","ok",1408,34,0.062
32
+ "gen:zs_pseudo|DC|nonzero","ok",3311,0,0.131
33
+ "gen:zs_pseudo|DC|filterByExpr","ok",656,10,0.058
34
+ "bcast:49033eab3e3c50d0|nonzero","ok",5746,248,0.246
35
+ "bcast:49033eab3e3c50d0|filterByExpr","ok",3852,246,0.154
36
+ "gen:zs_cal|T cell|nonzero","ok",4167,0,0.164
37
+ "gen:zs_cal|T cell|filterByExpr","ok",1376,0,0.061
38
+ "gen:zs_cal|B cell|nonzero","ok",3175,2,0.127
39
+ "gen:zs_cal|B cell|filterByExpr","ok",830,2,0.039
40
+ "gen:zs_cal|Monocyte|nonzero","ok",3773,0,0.153
41
+ "gen:zs_cal|Monocyte|filterByExpr","ok",1411,0,0.062
42
+ "gen:zs_cal|NK cell|nonzero","ok",2817,0,0.115
43
+ "gen:zs_cal|NK cell|filterByExpr","ok",478,0,0.026
44
+ "gen:zs_cal|DC|nonzero","ok",2484,0,0.099
45
+ "gen:zs_cal|DC|filterByExpr","ok",246,0,0.02
46
+ "bcast:16df33379a7def78|nonzero","ok",5528,29,0.236
47
+ "bcast:16df33379a7def78|filterByExpr","ok",3876,19,0.153
48
+ "gen:lora5|T cell|nonzero","ok",4066,10,0.168
49
+ "gen:lora5|T cell|filterByExpr","ok",1462,14,0.09
50
+ "gen:lora5|B cell|nonzero","ok",2974,0,0.116
51
+ "gen:lora5|B cell|filterByExpr","ok",815,0,0.039
52
+ "gen:lora5|Monocyte|nonzero","ok",3344,40,0.133
53
+ "gen:lora5|Monocyte|filterByExpr","ok",1194,5,0.055
54
+ "gen:lora5|NK cell|nonzero","ok",3033,3,0.119
55
+ "gen:lora5|NK cell|filterByExpr","ok",846,4,0.04
56
+ "gen:lora5|DC|nonzero","ok",2881,1213,0.122
57
+ "gen:lora5|DC|filterByExpr","ok",618,0,0.03
58
+ "bcast:70953ef3c751fa83|nonzero","ok",5528,34,0.234
59
+ "bcast:70953ef3c751fa83|filterByExpr","ok",3851,31,0.152
60
+ "gen:scsemi5|T cell|nonzero","ok",1559,0,0.065
61
+ "gen:scsemi5|T cell|filterByExpr","ok",224,0,0.017
62
+ "gen:scsemi5|B cell|nonzero","ok",574,0,0.028
63
+ "gen:scsemi5|B cell|filterByExpr","ok",121,0,0.014
64
+ "gen:scsemi5|Monocyte|nonzero","ok",898,337,0.039
65
+ "gen:scsemi5|Monocyte|filterByExpr","ok",262,4,0.044
66
+ "gen:scsemi5|NK cell|nonzero","ok",1220,0,0.049
67
+ "gen:scsemi5|NK cell|filterByExpr","ok",218,1,0.016
68
+ "gen:scsemi5|DC|nonzero","ok",445,6,0.024
69
+ "gen:scsemi5|DC|filterByExpr","ok",149,8,0.012