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  1. paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_panel_loss.csv +65 -0
  2. paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_panel_seeds.csv +6 -0
  3. paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_width_bench.csv +31 -0
  4. paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_width_bench_headline.csv +14 -0
paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_panel_loss.csv ADDED
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1
+ panel,run,source,n_genes,params,epoch,train_loss,val_loss,val_rel_e16,sat_epoch,sat_rule
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+ 2k,f01_2k_1x_seed20260627,server_1:/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_2k_1x_seed20260627/history.json,2000,23457184,1,0.14382223820329432,0.11024717311304759,1.1393775336715966,11,val within 1% of part-16 value
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+ 2k,f01_2k_1x_seed20260627,server_1:/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_2k_1x_seed20260627/history.json,2000,23457184,4,0.10913883541771678,0.10054115837810126,1.0390682484698472,11,val within 1% of part-16 value
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60
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61
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62
+ 15k,f01_p15k_1x_seed20260627,server_2:/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_p15k_1x_seed20260627/history.json,15114,124198932,13,0.20624736120411857,0.18735060426101205,1.001714405702593,7,val within 1% of part-16 value
63
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64
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65
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paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_panel_seeds.csv ADDED
@@ -0,0 +1,6 @@
 
 
 
 
 
 
 
1
+ method,seed_rank_in_list,is_base_seed,logfc_r,top50,comp_l1,checkpoint,checkpoint_sha256,source
2
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3
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4
+ diffusion_f016ks2_e16,2,False,0.3592398986673997,74.0,0.1793496310172717,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt,8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/sle/metrics_1006/summary_tidy.csv
5
+ diffusion_f016ks3_e16,3,False,0.3619273868311772,75.0,0.1763516089090083,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt,8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/sle/metrics_1006/summary_tidy.csv
6
+ diffusion_f016ks4_e16,4,False,0.35759574577094,72.0,0.1845124527843447,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/runs/f01_6k_1x_seed20260627/checkpoint_epoch_016.pt,8c7cd0e83e2bc19fe03dfcbc084919a1e2f61be8cc8bc12f4caf543dfda91633,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/sle/metrics_1006/summary_tidy.csv
paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_width_bench.csv ADDED
@@ -0,0 +1,31 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ arm,readout,part,method,logfc_r,top50,comp_l1,panel_genes,n_donors,source
2
+ 1x,cut_p>0.5,14,diffusion_6k_e14,0.2379283486545247,58.0,0.2016737107076825,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
3
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4
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5
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6
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7
+ 1x,bernoulli,16,diffusion_bern6k_e16,0.2870636397076974,73.0,0.2253052533657381,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
8
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9
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10
+ ctx4x,cut_p>0.5,16,diffusion_ctx2048_e16,0.2387036629833469,59.0,0.1465024279685452,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
11
+ ctx4x,bernoulli,14,diffusion_bernctx2048_e14,0.2707173007983969,63.0,0.1761985486786693,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
12
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13
+ ctx4x,bernoulli,16,diffusion_bernctx2048_e16,0.2620198407571524,70.0,0.1458916159962606,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
14
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15
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16
+ trunk4x,cut_p>0.5,16,diffusion_4xctx512_e16,0.2762383785565728,61.0,0.1705053160140683,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
17
+ trunk4x,bernoulli,14,diffusion_bern4xctx512_e14,0.2457241198430366,60.0,0.2108825267961448,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
18
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19
+ trunk4x,bernoulli,16,diffusion_bern4xctx512_e16,0.2824925770109648,66.0,0.1709538756752582,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
20
+ 4x,cut_p>0.5,14,diffusion_4x_e14,0.2227558415487243,54.0,0.3012373750299895,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
21
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22
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23
+ 4x,bernoulli,14,diffusion_bern4x_e14,0.234444123811804,55.0,0.2995264294608307,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
24
+ 4x,bernoulli,15,diffusion_bern4x_e15,0.2631964294884126,62.0,0.2492646318819822,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
25
+ 4x,bernoulli,16,diffusion_bern4x_e16,0.2786990729006778,61.0,0.2418647488522696,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
26
+ prop_pred,cut_p>0.5,14,diffusion_prop_e14_pred,0.2658501652941833,67.0,0.247716572257658,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
27
+ prop_pred,cut_p>0.5,15,diffusion_prop_e15_pred,0.2680516157679422,55.0,0.1971512051053041,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
28
+ prop_pred,cut_p>0.5,16,diffusion_prop_e16_pred,0.2551818004280374,62.0,0.2893478959875979,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
29
+ prop_oracle,cut_p>0.5,14,diffusion_prop_e14_oracle,0.2673073003011822,67.0,0.2474017845949906,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
30
+ prop_oracle,cut_p>0.5,15,diffusion_prop_e15_oracle,0.2721172179191539,55.0,0.1965746518602775,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
31
+ prop_oracle,cut_p>0.5,16,diffusion_prop_e16_oracle,0.2581793369977915,63.0,0.2872967667902551,2980,42,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv
paper-releases/pbisc-diffusion/updates/20260930T065633Z-summary-deck-scsemi-final/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/sec03_width_bench_headline.csv ADDED
@@ -0,0 +1,14 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ quantity,value,source
2
+ trunk4x_minus_1x_top50_cut,1.0,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
3
+ trunk4x_minus_1x_top50_bern,-6.000000000000007,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
4
+ trunk4x_minus_1x_r_cut,0.019571766524514284,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
5
+ trunk4x_minus_1x_r_bern,-0.018170614842551558,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
6
+ prop_oracle_vs_pred_max_abs_diff_per_part_r,0.004065602151211711,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
7
+ prop_oracle_vs_pred_max_abs_diff_per_part_top50,1.0,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
8
+ prop_pred_comp_l1_cut,0.24473855778352002,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
9
+ 1x_comp_l1_cut,0.19869969115206496,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
10
+ 1x_bern_r_top50_l1,0.286/67.667/0.197,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
11
+ ctx4x_bern_r_top50_l1,0.278/68.000/0.161,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
12
+ params_1x,54185184,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
13
+ params_ctx4x,102106848,/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json
14
+ run_to_run_resolution_r_top50,0.018/7.2 (SD over 16 parts of the per-part prop - 1x difference; THRESHOLD_RESCORE.md),/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/analysis/scsemi_benchmark_diffusion_20260913/metrics_arch_epochs/scanvi_server2/summary_tidy_latest.csv via data/sec03_width_bench*.csv; params from RUN_STATUS.json