Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/ilc_targeted_audit_genes.csv +49 -0
- paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/influenza_source_metadata.csv +3 -0
- paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/influenza_source_metadata_provenance.json +11 -0
- paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/local_audit.json +124 -0
paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/ilc_targeted_audit_genes.csv
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gene_id,gene_symbol,raw_panel_position,in_final6k,in_7k,in_8k,in_frozen_1005_annotator,measured_cells,detected_cells,sentinel,raw_duplicate_symbol
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| 2 |
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ENSG00000162594,IL23R,782,True,True,True,False,1048576,5479,True,False
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ENSG00000081985,IL12RB2,783,True,True,True,True,1048576,44336,False,False
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ENSG00000143365,RORC,1202,True,True,True,False,1048576,8941,True,False
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ENSG00000198821,CD247,1522,True,True,True,True,1048576,523293,False,False
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ENSG00000117586,TNFSF4,1568,True,True,True,False,1048576,10619,True,False
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ENSG00000115738,ID2,2088,True,True,True,True,1048576,264023,False,False
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ENSG00000115523,GNLY,2510,True,True,True,True,1048576,211270,False,False
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ENSG00000115594,IL1R1,2613,True,True,True,False,1048576,16063,False,False
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ENSG00000115602,IL1RL1,2615,True,True,True,False,1048576,1599,True,False
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ENSG00000115604,IL18R1,2616,True,True,True,True,1048576,76434,False,False
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ENSG00000115607,IL18RAP,2617,True,True,True,True,1048576,62572,False,False
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ENSG00000163600,ICOS,3038,True,True,True,True,1048576,120463,False,False
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ENSG00000132170,PPARG,3376,True,True,True,False,1048576,11244,True,False
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ENSG00000163508,EOMES,3440,True,True,True,True,1048576,57970,False,False
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ENSG00000172215,CXCR6,3561,True,True,True,False,1048576,13016,False,False
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ENSG00000056736,IL17RB,3739,True,True,True,False,1048576,1523,True,False
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ENSG00000157404,KIT,4647,True,True,True,False,1048576,10725,False,False
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ENSG00000109321,AREG,4743,True,True,True,True,1025792,50443,True,False
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ENSG00000168685,IL7R,5266,True,True,True,True,1048576,512521,False,False
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ENSG00000164400,CSF2,5606,False,True,True,False,1025792,654,True,False
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ENSG00000113525,IL5,5613,False,True,True,False,1035008,672,True,False
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ENSG00000169194,IL13,5615,False,True,True,False,1035008,524,True,False
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ENSG00000081059,TCF7,5631,True,True,True,True,1048576,438193,False,False
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ENSG00000096264,NCR2,6526,False,True,True,False,1001088,582,True,False
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ENSG00000112115,IL17A,6637,False,True,True,False,1001088,45,True,False
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ENSG00000112116,IL17F,6638,False,True,True,False,988800,103,True,False
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ENSG00000112486,CCR6,7083,True,True,True,False,1048576,53903,True,False
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ENSG00000106546,AHR,7206,True,True,True,False,1048576,176474,True,False
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ENSG00000134460,IL2RA,9547,True,True,True,True,1048576,49825,False,False
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ENSG00000107485,GATA3,9557,True,True,True,False,1048576,158914,False,False
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ENSG00000180644,PRF1,9805,True,True,True,True,1048576,177323,False,False
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ENSG00000183134,PTGDR2,10842,False,True,True,False,1048576,3562,False,False
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ENSG00000109906,ZBTB16,11377,True,True,True,True,1048576,87989,False,False
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ENSG00000198851,CD3E,11414,True,True,True,True,1048576,422512,False,False
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ENSG00000167286,CD3D,11415,True,True,True,True,1048576,349997,False,False
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ENSG00000111796,KLRB1,11693,True,True,True,True,1048576,143673,False,False
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ENSG00000134539,KLRD1,11709,True,True,True,True,1048576,163373,False,False
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ENSG00000127318,IL22,12213,False,True,True,False,1035008,195,True,False
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ENSG00000120659,TNFSF11,12726,True,True,True,False,1048576,1930,True,False
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ENSG00000100453,GZMB,13084,True,True,True,True,1048576,126194,False,False
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ENSG00000127152,BCL11B,13473,True,True,True,True,1048576,435083,False,False
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ENSG00000069667,RORA,13841,True,True,True,True,1048576,416233,False,False
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ENSG00000073861,TBX21,15769,True,True,True,True,1048576,92111,False,False
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ENSG00000096996,IL12RB1,17004,False,False,True,False,1048576,97664,False,False
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ENSG00000105374,NKG7,17689,True,True,True,True,1048576,225889,False,False
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ENSG00000189430,NCR1,17794,True,True,True,True,1048576,50788,False,False
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ENSG00000205755,CRLF2,19160,False,False,True,False,712576,1451,False,True
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ENSG00000292363,CRLF2,20027,True,True,True,False,336000,5248,False,True
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paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/influenza_source_metadata.csv
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dataset_prefix,platform,assay,split,condition,source_disease,handling,n_cells,sample_keys
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074_A,10x,10x 5' v1,test,Influenza,influenza,ex vivo,990,1
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074_A,10x,10x 5' v1,train,Influenza,influenza,ex vivo,18243,11
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paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/influenza_source_metadata_provenance.json
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{
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"source": {
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"path": "/home/sj_server_1/PBISC/paper-release-20260928/manuscript/source_data/corpus/corpus_cellgroups.csv",
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"bytes": 599627,
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"sha256": "cad720e9c8ab5759b9ec73e88a443c9733ebd04c22cbf5a28ccf3d56104c5d71"
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},
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"dataset_074_A": "COMBAT CELLxGENE collection",
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"train_cells": 18243,
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"all_cells": 19233,
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"expression_accessed": false
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}
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paper-releases/pbisc-diffusion/updates/20261015T141849Z-rare-cell-7k-8k-panels/diffusion/dataset/server_1/model8/plans/rare_gene_context_expansion_20261015/local_audit.json
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{
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"status": "CPU_metadata_verified",
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"raw_axis": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_7_no_annotation_sh_hwang/data/e2_full_source/metadata/var.parquet",
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"bytes": 755161,
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},
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"n_raw_genes": 20097,
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"n_final_genes": 6000,
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"selected_csv": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/tiers/6k/selected_genes.csv",
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"bytes": 451366,
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"positions": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/tiers/6k/gene_positions.npy",
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"bytes": 48128,
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"source_hash_checks": {
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"full_gene_statistics": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/full_gene_statistics.csv",
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"bytes": 2919972,
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"sha256": "745c8b5df2d1007f31e24e8391f15421885b78ca1c1026705ced4ae8d7591288",
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"matches": true
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"ranked_gene_positions": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/ranked_gene_positions.npy",
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"matches": true
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},
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"leakage_audit": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/leakage_audit.json",
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"bytes": 1674,
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"ordered_train_recipes": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/ordered_train_recipes.csv",
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"sampled_cell_references": {
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/artifacts/panel_ladder_floor01_1m_20260923/sampled_cell_references.csv",
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"configs": [
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{
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"same_final6k": true
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},
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{
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/f01_trunk4x_complete_20261013/configs/train.json",
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"positions_sha256": "653ffa45ac519000baa41086c52408009391d6e68cfb218bc6a50d34163fcb24",
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"same_final6k": true
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}
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],
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"sampler": {
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"expression_scope": "train_only",
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"datasets": 22,
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| 80 |
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"donor_labels": 1399,
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"sample_keys": 2853,
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"gene_by_donor_detection_not_available": true,
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"counts_are_sampled_occurrences_not_proven_unique_cells": true
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},
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"annotation": {
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| 86 |
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"model_manifest": {
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| 87 |
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"path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/aifi_scanvi_rebuild_20260916/runs/aifi_scanvi_f01common_v1/MODEL_MANIFEST.json",
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"bytes": 6702,
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"sha256": "55f194bfa366f315e694b5504f6b68d8091368fb5e65aa7f2203f80708fda18c"
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},
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"genes": {
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