Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261001T145641Z-lora-rank-sweep-calibration-budget/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec08_pairs_realism.csv

@@ -0,0 +1,65 @@
+panel,dataset,series,pairs,value,source,y_axis_break
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+comp_l1,immicro,zs_cal,0,0.19850275515696958,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,zs_cal_budget,5,0.19164257165311652,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n5,True
+comp_l1,immicro,zs_cal_budget,10,0.1996025683151641,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n10,True
+comp_l1,immicro,zs_cal_budget,20,0.19112138214206625,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n20,True
+comp_l1,immicro,zs_cal_budget,40,0.19600612924651933,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n40,True
+comp_l1,immicro,zs_cal_budget,all,0.19850275515696958,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json arm zs__cal (alpha from all fold pairs = LoRA all's pairs),True
+comp_l1,immicro,lora,5,0.17145118443734877,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,lora,10,0.18788133961403,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,lora,20,0.17232428387355106,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,lora,40,0.17138488720357878,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,lora,all,0.16172890350786212,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,ref_pseudo,,0.20433690901119841,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+comp_l1,immicro,ref_null,,0.1606372707722086,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,True
+coverage,immicro,zero_shot,0,0.1918380062305296,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,zs_cal,0,0.527227414330218,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,zs_cal_budget,5,0.5270404984423676,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n5,False
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+coverage,immicro,zs_cal_budget,20,0.5287227414330218,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n20,False
+coverage,immicro,zs_cal_budget,40,0.5223676012461059,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n40,False
+coverage,immicro,zs_cal_budget,all,0.527227414330218,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json arm zs__cal (alpha from all fold pairs = LoRA all's pairs),False
+coverage,immicro,lora,5,0.839190031152648,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,lora,10,0.7856697819314642,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,lora,20,0.755202492211838,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,lora,40,0.7784423676012461,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,lora,all,0.7842990654205607,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+coverage,immicro,ref_pseudo,,0.5244236760124611,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,False
+meta,immicro,n_scored_donors,,107,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/summary.json,
+meta,immicro,n_pairs_all,all,78–79,RUN.json train_rows: /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/immicro/fold0/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/immicro/fold1/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/immicro/fold2/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/immicro/fold3/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/immicro/fold4/real_lora/RUN.json,
+meta,immicro,n_inner_val,,7,"RUN.json inner_val_rows (all LoRA arms, 5 folds)",
+meta,immicro,n_test_donors_per_fold,,22/22/21/21/21,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/immicro/PREPARE.json fold_sizes test,
+meta,immicro,n_alpha_fit_pairs,0,85–86,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/immicro/PREPARE.json fold_sizes train+inner_val; prepare_dataset.py fit = fold != f,
+comp_l1,ye2026_sepsis,zero_shot,0,0.5108261993151957,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,zs_cal,0,0.40065324062398555,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,zs_cal_budget,5,0.4119864488366454,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n5,False
+comp_l1,ye2026_sepsis,zs_cal_budget,10,0.4139614715438767,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n10,False
+comp_l1,ye2026_sepsis,zs_cal_budget,20,0.40747903968889737,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n20,False
+comp_l1,ye2026_sepsis,zs_cal_budget,40,0.4041847565927502,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n40,False
+comp_l1,ye2026_sepsis,zs_cal_budget,all,0.40065324062398555,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json arm zs__cal (alpha from all fold pairs = LoRA all's pairs),False
+comp_l1,ye2026_sepsis,lora,5,0.4280613786711354,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,lora,10,0.38966522903618334,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,lora,20,0.3802570478327888,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,lora,40,0.3647568921706022,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,lora,all,0.3618246783833512,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,ref_pseudo,,0.233165273351523,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+comp_l1,ye2026_sepsis,ref_null,,0.515468004498372,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,zero_shot,0,0.06731707317073171,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,zs_cal,0,0.4308130081300813,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,zs_cal_budget,5,0.4353658536585366,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n5,False
+coverage,ye2026_sepsis,zs_cal_budget,10,0.44146341463414634,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n10,False
+coverage,ye2026_sepsis,zs_cal_budget,20,0.42520325203252035,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n20,False
+coverage,ye2026_sepsis,zs_cal_budget,40,0.432520325203252,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/cal_budget_20261001/pooled arm zs__cal_n40,False
+coverage,ye2026_sepsis,zs_cal_budget,all,0.4308130081300813,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json arm zs__cal (alpha from all fold pairs = LoRA all's pairs),False
+coverage,ye2026_sepsis,lora,5,0.7666666666666667,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,lora,10,0.7858536585365854,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,lora,20,0.8066666666666666,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,lora,40,0.817560975609756,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,lora,all,0.829349593495935,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+coverage,ye2026_sepsis,ref_pseudo,,0.48,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,False
+meta,ye2026_sepsis,n_scored_donors,,82,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ye2026_sepsis/pooled/summary.json,
+meta,ye2026_sepsis,n_pairs_all,all,58–59,RUN.json train_rows: /home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/ye2026_sepsis/fold0/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/ye2026_sepsis/fold1/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/ye2026_sepsis/fold2/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/ye2026_sepsis/fold3/real_lora/RUN.json;/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/runs/ye2026_sepsis/fold4/real_lora/RUN.json,
+meta,ye2026_sepsis,n_inner_val,,7–8,"RUN.json inner_val_rows (all LoRA arms, 5 folds)",
+meta,ye2026_sepsis,n_test_donors_per_fold,,17/17/16/16/16,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/PREPARE.json fold_sizes test,
+meta,ye2026_sepsis,n_alpha_fit_pairs,0,65–66,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/data/ye2026_sepsis/PREPARE.json fold_sizes train+inner_val; prepare_dataset.py fit = fold != f,

paper-releases/pbisc-diffusion/updates/20261001T145641Z-lora-rank-sweep-calibration-budget/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec08_pairs_signal.csv

@@ -0,0 +1,109 @@
+panel,dataset,series,pairs,value,source,y_axis_break
+nk_fraction_r,immicro,zero_shot,0,0.49394160824576405,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/per_donor.csv,False
+nk_fraction_r,immicro,zs_cal,0,0.5003961466692975,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/per_donor.csv,False
+nk_fraction_r,immicro,zs_cal_budget,5,0.5019382482162618,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n5,False
+nk_fraction_r,immicro,zs_cal_budget,10,0.5149641511550681,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n10,False
+nk_fraction_r,immicro,zs_cal_budget,20,0.5251026675518605,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n20,False
+nk_fraction_r,immicro,zs_cal_budget,40,0.4999646152855758,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/cal_budget_20261001/pooled arm zs__cal_n40,False
+nk_fraction_r,immicro,zs_cal_budget,all,0.5003961466692975,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/per_donor.csv arm zs__cal (alpha from all fold pairs = LoRA all's pairs),False
+nk_fraction_r,immicro,lora,5,0.19927421883785934,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/per_donor.csv,False
+nk_fraction_r,immicro,lora,10,0.39716857270640143,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/immicro/pooled/per_donor.csv,False
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