Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/k4000_quality.csv

@@ -0,0 +1,21 @@
+cohort,draw,arm,comp_l1,precision,coverage
+ye2026_sepsis,0,lora5,0.4723364713369038,0.9267532467532468,0.7058874458874459
+ye2026_sepsis,0,lora5_k4000,0.478616897104063,0.917922077922078,0.6957575757575758
+ye2026_sepsis,1,lora5,0.4725655492172997,0.9157575757575758,0.6619047619047619
+ye2026_sepsis,1,lora5_k4000,0.4675824701765549,0.9318614718614718,0.680952380952381
+ye2026_sepsis,2,lora5,0.4986968896699433,0.9184415584415584,0.7606060606060606
+ye2026_sepsis,2,lora5_k4000,0.4952764323292781,0.9156709956709956,0.7568831168831169
+ye2026_sepsis,3,lora5,0.4968788955478774,0.8843290043290043,0.6553246753246753
+ye2026_sepsis,3,lora5_k4000,0.4017548438041323,0.9006060606060606,0.6630303030303031
+ye2026_sepsis,4,lora5,0.3904901227072598,0.8835497835497835,0.687012987012987
+ye2026_sepsis,4,lora5_k4000,0.3800569915521451,0.8824242424242424,0.6954112554112554
+imperial_eskd,0,lora5,0.478123841402283,0.8608470588235294,0.7569882352941176
+imperial_eskd,0,lora5_k4000,0.4542219103930596,0.855764705882353,0.7515764705882353
+imperial_eskd,1,lora5,0.5160151799648663,0.8449637765833139,0.7829399392381398
+imperial_eskd,1,lora5_k4000,0.514172186504626,0.8353820986211732,0.769572329983641
+imperial_eskd,2,lora5,0.5117644876225123,0.8453749058025621,0.6650339110776187
+imperial_eskd,2,lora5_k4000,0.5090921870486029,0.82620572720422,0.6098342125094197
+imperial_eskd,3,lora5,0.5275199844470723,0.8801771054330781,0.842680564523568
+imperial_eskd,3,lora5_k4000,0.5088421399406102,0.8841435291947237,0.8354856563047689
+imperial_eskd,4,lora5,0.4814281371117744,0.8319146946029371,0.6369376110747358
+imperial_eskd,4,lora5_k4000,0.4497700412559653,0.828453839678234,0.6390421850154335

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/rare_misses_1.csv

@@ -0,0 +1,17 @@
+state,ye2026_sepsis,imperial_eskd,giroux2022,ji2025_chili,arm
+C1Q-high monocyte (reference),63.45774785323965,35.02895137988305,60.0,12.0,lora5
+Cycling T/NK,25.06686192355151,35.05582972221776,0.0,18.68131868131868,lora5
+Cycling activated T (CD38/HLA-DR),28.396305368442544,38.67450980392156,0.0,17.333333333333332,lora5
+Proliferating T (label),3.09652509652509,5.201600640256101,0.0,2.66666666666666,lora5
+Plasmablast (label),9.21667554735527,8.738215286114439,0.0,8.476190476190471,lora5
+Plasmablast (markers),7.067669172932329,1.53846153846153,0.0,,lora5
+MS1 monocyte (IL1R2+),52.78115673942534,49.70992800303145,100.0,22.0,lora5
+Cycling monocyte (Ye 2026),74.78595478595477,66.05505320524576,40.0,87.41391941391943,lora5
+C1Q-high monocyte (reference),47.10772833723653,35.692643278047,60.0,57.333333333333336,scsemi5
+Cycling T/NK,79.03064448331503,86.25322742258588,65.0,91.31868131868131,scsemi5
+Cycling activated T (CD38/HLA-DR),79.550948201285,88.49411764705883,15.0,89.33333333333333,scsemi5
+Proliferating T (label),51.554054054054056,26.504681872749096,0.0,48.285714285714285,scsemi5
+Plasmablast (label),43.87874016165504,28.50404161664666,50.0,52.666666666666664,scsemi5
+Plasmablast (markers),39.89336978810663,21.92307692307692,0.0,,scsemi5
+MS1 monocyte (IL1R2+),96.13502692481603,92.60722495894912,100.0,79.82783882783883,scsemi5
+Cycling monocyte (Ye 2026),91.67460317460318,95.94173049885501,60.0,100.0,scsemi5

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/rare_misses_2.csv

@@ -0,0 +1,15 @@
+state,ye2026_sepsis,imperial_eskd,giroux2022,ji2025_chili,arm
+ISG-high monocyte (positive control),26.33473563732357,11.055724417426541,5.0,28.4065934065934,lora5
+ISG-high T,41.75792587045855,20.257154945535643,5.0,59.02020202020202,lora5
+DN2 / ABC B,35.58100472604041,24.701320587063762,20.0,38.97125097125097,lora5
+HSPC,57.422502334267044,25.88527059411019,63.33333333333333,30.0,lora5
+Cytotoxic CD4 T,4.7058371735791,4.065306122448971,0.0,22.247474747474747,lora5
+Granulocyte-like (LDG),78.20292477008894,86.64631069819231,85.0,90.47619047619048,lora5
+Platelet signal in monocytes (negative control),16.87565656110738,15.911600551069242,0.0,1.33333333333333,lora5
+ISG-high monocyte (positive control),93.31965557062011,51.39074636946977,50.0,100.0,scsemi5
+ISG-high T,93.87592109123176,52.57899713464113,25.0,98.33333333333331,scsemi5
+DN2 / ABC B,97.89196310935442,88.58894301968114,100.0,100.0,scsemi5
+HSPC,98.31746031746032,90.06008528428447,100.0,97.14285714285717,scsemi5
+Cytotoxic CD4 T,8.443932411674341,6.4816326530612205,0.0,33.98989898989898,scsemi5
+Granulocyte-like (LDG),90.99868622256683,97.58842667501784,100.0,88.95238095238096,scsemi5
+Platelet signal in monocytes (negative control),25.93387373100488,67.09983593285301,0.0,29.33333333333333,scsemi5

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/disease/sepsis_rare_direction.csv

@@ -0,0 +1,22 @@
+contrast,arm,kept,eligible
+adult sepsis vs adult HC,lora_n10__raw,13,15
+adult sepsis vs adult HC,lora_n20__raw,14,15
+adult sepsis vs adult HC,lora_n40__raw,14,15
+adult sepsis vs adult HC,lora_n5__raw,13,15
+adult sepsis vs adult HC,real_lora__raw,13,15
+adult sepsis vs adult HC,zs__pseudo,13,15
+adult sepsis vs adult HC,zs__raw,11,15
+all sepsis vs all controls,lora_n10__raw,14,15
+all sepsis vs all controls,lora_n20__raw,11,15
+all sepsis vs all controls,lora_n40__raw,11,15
+all sepsis vs all controls,lora_n5__raw,10,15
+all sepsis vs all controls,real_lora__raw,11,15
+all sepsis vs all controls,zs__pseudo,9,15
+all sepsis vs all controls,zs__raw,10,15
+paediatric sepsis vs paediatric HC,lora_n10__raw,8,15
+paediatric sepsis vs paediatric HC,lora_n20__raw,7,15
+paediatric sepsis vs paediatric HC,lora_n40__raw,9,15
+paediatric sepsis vs paediatric HC,lora_n5__raw,8,15
+paediatric sepsis vs paediatric HC,real_lora__raw,9,15
+paediatric sepsis vs paediatric HC,zs__pseudo,7,15
+paediatric sepsis vs paediatric HC,zs__raw,7,15