Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261005T142225Z-rare-states-scratch-vs-pretrained/diffusion/dataset/server_1/model8/plans/rare_states_screen_20261004/out/scratch_vs_lora_20261005/verify_recompute_within_label_marker_diffs.csv

@@ -0,0 +1,9 @@
+comparison,metric,scratch_k_n,pretrained_k_n,diff_scratch_minus_pretrained_pp,donor_boot_lo,donor_boot_hi,fisher_p
+5 pairs,pct_PT_label_passing,25/135,51/224,-4.249338624338625,-14.703941201170187,6.083280462643425,0.3543431402603362
+5 pairs,pct_T_cycling,28/13611,54/12396,-0.2299084299378322,-0.47001131089757353,-0.04613385642504804,0.0011907946141393676
+58 pairs vs LoRA,pct_PT_label_passing,18/110,40/153,-9.78015448603684,-17.130493366500826,-1.622505307855634,0.07054814604042395
+58 pairs vs LoRA,pct_T_cycling,21/13443,44/14147,-0.15480487368996562,-0.3050472648556022,-0.023791565071076735,0.008779896306020153
+58 pairs vs full FT,pct_PT_label_passing,18/110,50/180,-11.414141414141415,-18.397392759327698,-3.6604326704517565,0.03183501261068821
+58 pairs vs full FT,pct_T_cycling,21/13443,61/13435,-0.2978228299995838,-0.4863508774847495,-0.1320526685730805,7.236170799843491e-06
+recipes,pct_PT_label_passing,23/98,43/177,-0.8243975556324223,-10.527796902734346,8.024838131974091,1.0
+recipes,pct_T_cycling,23/13815,47/13851,-0.17283997651129743,-0.31867838294050765,-0.04831972569043938,0.0055263048603908845

paper-releases/pbisc-diffusion/updates/20261005T142225Z-rare-states-scratch-vs-pretrained/diffusion/dataset/server_1/model8/plans/rare_states_screen_20261004/out/scratch_vs_lora_20261005/verify_recompute_within_sensitivity.csv

@@ -0,0 +1,43 @@
+analysis,kind,comparison,subset,n_states,dropped,D,ci_lo,ci_hi,bc_lo,bc_hi
+fidelity mean D,main,5 pairs,13 rare states,13,,0.22377981857864399,-0.07807423645532428,0.4055025835760699,0.009900031859809522,0.45828980496406274
+fidelity mean D,main,5 pairs,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),0.40977994143102026,-0.0005100619902742942,0.6486387007550933,0.1235031621874654,0.7358474968796506
+fidelity mean D,main,5 pairs,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),0.5738111121887688,0.12771707853797892,0.8101605768380784,0.26535345212696115,0.8877087244338436
+fidelity mean D,main,5 pairs,drop double failures (both outside 0.5-2x),8,Cycling activated T (CD38/HLA-DR); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.107628250590829,-0.1463144763352987,0.2635193096787766,-0.04884606145314598,0.33927189870763014
+fidelity mean D,main,5 pairs,drop label states + double failures,6,Cycling activated T (CD38/HLA-DR); Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.40991128649091363,0.007005067304934024,0.6178564902911472,0.17313692994600416,0.7202967100479636
+fidelity mean D,main,58 pairs vs LoRA,13 rare states,13,,0.019151925949383884,-0.3497161225066392,0.2546273435529553,-0.2383925193057884,0.3791157733913335
+fidelity mean D,main,58 pairs vs LoRA,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),0.1939508079315429,-0.23188245164455923,0.4220579222146351,-0.03366176990418605,0.5911265252075745
+fidelity mean D,main,58 pairs vs LoRA,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),0.23029214659428687,-0.1905485183020124,0.43976592493365085,0.0210796232370448,0.6393810041775636
+fidelity mean D,main,58 pairs vs LoRA,drop double failures (both outside 0.5-2x),8,Cycling activated T (CD38/HLA-DR); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.019323837444976254,-0.5316429706400152,0.27946696822658557,-0.3786169402148458,0.3881283748657924
+fidelity mean D,main,58 pairs vs LoRA,drop label states + double failures,6,Cycling activated T (CD38/HLA-DR); Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.2883155250575285,-0.3606033183150543,0.5430940663278641,0.004431805945313312,0.854600133206383
+fidelity mean D,main,58 pairs vs full FT,13 rare states,13,,0.13717974948464545,-0.13820508343417104,0.406414119140758,-0.1286659213818015,0.412582293210682
+fidelity mean D,main,58 pairs vs full FT,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),0.35390933762779847,0.015486090812582724,0.6222826177806897,0.07538778257947061,0.7001802740662115
+fidelity mean D,main,58 pairs vs full FT,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),0.3951733119212601,0.04721768696494183,0.673811098083847,0.10846899817539153,0.7538902510642299
+fidelity mean D,main,58 pairs vs full FT,drop double failures (both outside 0.5-2x),9,MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.02533166932334241,-0.33641599756778273,0.3652913925579498,-0.3201322385504262,0.3763682400917441
+fidelity mean D,main,58 pairs vs full FT,drop label states + double failures,7,Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.3339501420736391,-0.11136800881868386,0.6600476099234289,-0.04118752604542739,0.7370198588144293
+fidelity mean D,main,recipes,13 rare states,13,,-0.0886498772049411,-0.3788160856925323,0.17775621997033475,-0.3964148233256288,0.16381799898191515
+fidelity mean D,main,recipes,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),0.054979106810958654,-0.2997505521791194,0.31374814646927024,-0.25643742420720717,0.3446783519652404
+fidelity mean D,main,recipes,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),0.17979960023881178,-0.16870077314114942,0.44317354619566146,-0.11435670654850562,0.4808031406802874
+fidelity mean D,main,recipes,drop double failures (both outside 0.5-2x),8,Cycling activated T (CD38/HLA-DR); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); DN2 / ABC B; Granulocyte-like (LDG),0.06357860942412319,-0.26324849239465314,0.37492812728034364,-0.27834139594852136,0.36911218719555156
+fidelity mean D,main,recipes,drop label states + double failures,6,Cycling activated T (CD38/HLA-DR); Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); DN2 / ABC B; Granulocyte-like (LDG),0.37764124232962754,-0.10039946150236748,0.6717645800704058,0.02553346855170233,0.7544253951050945
+fidelity mean D,reference,zs ref: 5 pairs,13 rare states,13,,-0.23903161174392654,-0.5149824208963285,0.0050070773684960735,-0.5073594797882952,0.008090462917896472
+fidelity mean D,reference,zs ref: 5 pairs,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),-0.10762009150585304,-0.438529912042685,0.16756665304428486,-0.42817845065124094,0.18010542948779287
+fidelity mean D,reference,zs ref: 5 pairs,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),-0.1304558057525137,-0.5299952876816036,0.17156615932616734,-0.5029881663929064,0.19511783139370686
+fidelity mean D,reference,zs ref: 5 pairs,drop double failures (both outside 0.5-2x),9,MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.5496674493553778,-0.8663283071581563,-0.24234545875831032,-0.8656909914084294,-0.24111183160209346
+fidelity mean D,reference,zs ref: 5 pairs,drop label states + double failures,7,Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.4319167282988201,-0.8332243271308479,-0.05930266166396465,-0.8185554231888709,-0.04440011336633739
+fidelity mean D,reference,zs ref: 58 pairs,13 rare states,13,,-0.3504577408999594,-0.6603229818164712,-0.12844372516156985,-0.6188296330640856,-0.10131015298598578
+fidelity mean D,reference,zs ref: 58 pairs,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),-0.2269514401419566,-0.6144225108272102,0.060162224875488654,-0.546200342466383,0.10555908573486085
+fidelity mean D,reference,zs ref: 58 pairs,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),-0.41820435333897066,-0.8487055224203051,-0.12186536429845768,-0.7615409931536233,-0.0662262788739862
+fidelity mean D,reference,zs ref: 58 pairs,drop double failures (both outside 0.5-2x),7,C1Q-high monocyte (reference); Cycling T/NK; MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.12724556406108484,-0.4536933228377206,0.05340311659565461,-0.3497409385957986,0.12011477611701211
+fidelity mean D,reference,zs ref: 58 pairs,drop label states + double failures,5,C1Q-high monocyte (reference); Cycling T/NK; Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),0.23375316834207113,-0.3032376659054104,0.5625182182578028,-0.12183185239540993,0.7196273321061477
+fidelity mean D,reference,zs ref: recipes,13 rare states,13,,-0.4566891555399213,-0.7293302355410954,-0.23849045111631267,-0.7476006700961233,-0.2505333766613203
+fidelity mean D,reference,zs ref: recipes,11 marker states (drop 2 label states),11,Proliferating T (label); Plasmablast (label),-0.331828442880133,-0.6824658044143828,-0.09126683714564597,-0.6525397530171083,-0.06697361953603974
+fidelity mean D,reference,zs ref: recipes,10 states (drop 2 label states + LDG),10,Proliferating T (label); Plasmablast (label); Granulocyte-like (LDG),-0.4897636754727275,-0.8841447981515538,-0.21787029592707507,-0.843812658141439,-0.17424093707663196
+fidelity mean D,reference,zs ref: recipes,drop double failures (both outside 0.5-2x),8,Cycling T/NK; MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.6866157008583323,-0.9821261391651309,-0.4832808379349316,-1.004749374238328,-0.4897661061059622
+fidelity mean D,reference,zs ref: recipes,drop label states + double failures,6,Cycling T/NK; Proliferating T (label); Plasmablast (label); MS1 monocyte (IL1R2+); Cycling monocyte (Ye 2026); ISG-high T; Granulocyte-like (LDG),-0.5343465760881907,-1.0035341203123656,-0.24078381432622964,-0.8906890807458845,-0.17947736060203684
+Spearman mean diff (pre - scratch),main,5 pairs,13 rare states,13,,0.10856486031593357,-0.07996732053191782,0.29360705266923764,-0.07944491915581972,0.2950734281164091
+Spearman mean diff (pre - scratch),main,58 pairs vs LoRA,13 rare states,13,,0.019213620099879446,-0.12139028117432825,0.18603573111716104,-0.11625556901135499,0.200352083711607
+Spearman mean diff (pre - scratch),main,58 pairs vs full FT,13 rare states,13,,0.15436717215856502,-0.008216269484383119,0.31307021869357193,0.0034885369729603937,0.3334431672367162
+Spearman mean diff (pre - scratch),main,recipes,13 rare states,13,,0.04140471625918134,-0.1059094454821153,0.21725511895356772,-0.10165878015433284,0.23238561518835596
+Spearman mean diff (pre - scratch),reference,zs ref: 5 pairs,13 rare states,13,,0.04368238168114415,-0.15880607951795528,0.22555288072378366,-0.15604716392234252,0.22764679039545715
+Spearman mean diff (pre - scratch),reference,zs ref: 58 pairs,13 rare states,13,,-0.04353925470975836,-0.29503069200673504,0.19792938014814435,-0.29646361734784055,0.1935466755352061
+Spearman mean diff (pre - scratch),reference,zs ref: recipes,13 rare states,13,,-0.12641829611166716,-0.336521763279716,0.11717404595595073,-0.3576405507544432,0.09830089831735667

paper-releases/pbisc-diffusion/updates/20261005T142225Z-rare-states-scratch-vs-pretrained/diffusion/dataset/server_1/model8/plans/rare_states_screen_20261004/out/scratch_vs_lora_20261005/verify_recompute_within_spearman.csv

@@ -0,0 +1,113 @@
+kind,comparison,scratch_arm,pretrained_arm,state,rare,rho_scratch,rho_pretrained,diff_pre_minus_scratch,ci_lo,ci_hi,n_finite,ci_lo_nanmean,ci_hi_nanmean,verdict
+main,5 pairs,scratch_n5__raw,lora_n5__raw,C1Q-high monocyte (reference),True,0.4093137254901961,0.1523346121462914,-0.2569791133439047,-0.764943097852379,0.1117251139783693,2000,-0.764943097852379,0.1117251139783693,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Cycling T/NK,True,-0.10727700799479216,0.17892156862745098,0.28619857662224313,-0.29602336331224227,0.7885688269712426,2000,-0.29602336331224227,0.7885688269712426,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Cycling activated T (CD38/HLA-DR),True,-0.5490196078431373,-0.2457009873327281,0.3033186205104092,-0.12290640172783149,0.7279178986207936,2000,-0.12290640172783149,0.7279178986207936,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Proliferating T (label),True,0.43137254901960786,0.465686274509804,0.03431372549019612,-0.5839055312030482,0.6304665717869988,2000,-0.5839055312030482,0.6304665717869988,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Plasmablast (label),True,0.38619026144735963,0.2758654161359137,-0.11032484531144593,-0.6574442131081141,0.41916646660322776,2000,-0.6574442131081141,0.41916646660322776,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Plasmablast (markers),True,0.4220503901938074,0.10073740480641852,-0.3213129853873889,-0.8605204473145883,0.1842316022208705,2000,-0.8605204473145883,0.1842316022208705,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,MS1 monocyte (IL1R2+),True,0.7818627450980392,0.8378403668046027,0.05597762170656351,-0.23699668123682338,0.37503403082404174,2000,-0.23699668123682338,0.37503403082404174,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Cycling monocyte (Ye 2026),True,0.17777724028126524,0.2192135788588026,0.04143633857753737,-0.7838956787600785,0.8164796205307348,2000,-0.7838956787600785,0.8164796205307348,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,ISG-high monocyte (positive control),False,-0.21813725490196081,-0.09196813500538946,0.12616911989657137,-0.5499769753332745,0.7852173913043472,2000,-0.5499769753332745,0.7852173913043472,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,ISG-high T,True,0.007371029619981842,0.14682632943206325,0.1394552998120814,-0.7577748982048025,0.9959969732705479,2000,-0.7577748982048025,0.9959969732705479,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,DN2 / ABC B,True,0.32598039215686275,0.37500000000000006,0.0490196078431373,-0.3147655221778383,0.40256003233855947,2000,-0.3147655221778383,0.40256003233855947,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,HSPC,True,0.1347420139090739,0.10263930474438031,-0.032102709164693585,-0.7815112299558341,0.7704146096825889,2000,-0.7815112299558341,0.7704146096825889,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Cytotoxic CD4 T,True,-0.39460784313725494,0.7426470588235294,1.1372549019607843,0.46146616541353386,1.603058676654182,2000,0.46146616541353386,1.603058676654182,pretrained tracks better
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Granulocyte-like (LDG),True,0.4034639472628964,0.4885520920545136,0.08508814479161719,-0.5482894140113169,0.7025736843662138,2000,-0.5482894140113169,0.7025736843662138,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,Platelet signal in monocytes (negative control),False,-0.37500000000000006,0.21813725490196081,0.5931372549019609,-0.004963242678664703,1.1454221818999537,2000,-0.004963242678664703,1.1454221818999537,n.s.
+main,5 pairs,scratch_n5__raw,lora_n5__raw,MEAN13,True,0.18686306426953125,0.2954279245854648,0.10856486031593354,-0.07996732053191782,0.29360705266923764,2000,-0.07996732053191782,0.29360705266923764,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,C1Q-high monocyte (reference),True,0.508601043778747,0.49076148484973875,-0.017839558929008292,-0.4035350250311836,0.34011004410710594,2000,-0.4035350250311836,0.34011004410710594,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Cycling T/NK,True,-0.1712290602468288,0.1814837864106352,0.352712846657464,-0.27651329431797156,0.8843059869866543,2000,-0.27651329431797156,0.8843059869866543,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Cycling activated T (CD38/HLA-DR),True,-0.5686274509803922,-0.27450980392156865,0.2941176470588236,-0.223623394928827,0.8060060807075731,2000,-0.223623394928827,0.8060060807075731,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Proliferating T (label),True,0.48774509803921573,0.4852941176470589,-0.002450980392156854,-0.6071949349442379,0.5143457531343807,2000,-0.6071949349442379,0.5143457531343807,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Plasmablast (label),True,0.43200400819779466,0.01353858715149784,-0.4184654210462968,-1.041085801215521,0.2831466837213311,2000,-1.041085801215521,0.2831466837213311,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Plasmablast (markers),True,0.1998774134117131,0.12285049366636405,-0.07702691974534906,-0.7390081658361949,0.5632170959325671,2000,-0.7390081658361949,0.5632170959325671,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,MS1 monocyte (IL1R2+),True,0.9135501410535354,0.8113594397767039,-0.1021907012768315,-0.3717461312088495,0.07183232281386388,2000,-0.3717461312088495,0.07183232281386388,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Cycling monocyte (Ye 2026),True,0.1902027163011394,-0.3571153040756087,-0.5473180203767481,-1.1735255126155963,0.25680981616671733,2000,-1.1735255126155963,0.25680981616671733,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,ISG-high monocyte (positive control),False,0.6453992588351098,0.6904197744049659,0.04502051556985609,-0.28218006362992926,0.3964710774232861,2000,-0.28218006362992926,0.3964710774232861,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,ISG-high T,True,0.411942376825704,0.7140099425686712,0.3020675657429672,-0.14456611835467142,0.7743030921904901,2000,-0.14456611835467142,0.7743030921904901,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,DN2 / ABC B,True,0.49019607843137264,0.37500000000000006,-0.11519607843137258,-0.6369439416315211,0.3657845091313612,2000,-0.6369439416315211,0.3657845091313612,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,HSPC,True,-0.06803619704615703,0.2378232735776752,0.30585947062383223,-0.18275467106750481,0.7393997151335979,1999,-0.18275467106750481,0.7393997151335979,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Cytotoxic CD4 T,True,0.5784313725490197,0.761673060731457,0.18324168818243736,-0.1429800004064873,0.5916800079847656,2000,-0.1429800004064873,0.5916800079847656,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Granulocyte-like (LDG),True,0.1584435682707749,0.2507090915014465,0.09226552323067158,-0.35151529011262417,0.5670237327298444,2000,-0.35151529011262417,0.5670237327298444,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,Platelet signal in monocytes (negative control),False,0.5490196078431373,0.004901960784313726,-0.5441176470588236,-1.0357948860733157,0.015168149252894586,2000,-1.0357948860733157,0.015168149252894586,n.s.
+main,58 pairs vs LoRA,scratch_full__raw,real_lora__raw,MEAN13,True,0.2740847006604337,0.29329832076031315,0.019213620099879425,-0.12140398683423756,0.18606156416885464,1999,-0.12139028117432825,0.18603573111716104,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,C1Q-high monocyte (reference),True,0.508601043778747,0.5689761952333429,0.06037515145459582,-0.32404837707619316,0.47566177287626804,2000,-0.32404837707619316,0.47566177287626804,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Cycling T/NK,True,-0.1712290602468288,0.465686274509804,0.6369153347566328,0.007545996398904842,1.1110058919446604,2000,0.007545996398904842,1.1110058919446604,pretrained tracks better
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Cycling activated T (CD38/HLA-DR),True,-0.5686274509803922,0.014705882352941176,0.5833333333333334,-0.057004779607010087,1.1549196432357554,2000,-0.057004779607010087,1.1549196432357554,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Proliferating T (label),True,0.48774509803921573,0.7352941176470589,0.24754901960784315,-0.37717943548387084,0.7971289916851505,2000,-0.37717943548387084,0.7971289916851505,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Plasmablast (label),True,0.43200400819779466,0.373006415752611,-0.058997592445183655,-0.6288438004545807,0.5702283015391983,2000,-0.6288438004545807,0.5702283015391983,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Plasmablast (markers),True,0.1998774134117131,0.07734819746423262,-0.1225292159474805,-0.7206014448853443,0.46236660308700994,2000,-0.7206014448853443,0.46236660308700994,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,MS1 monocyte (IL1R2+),True,0.9135501410535354,0.9098714156533197,-0.003678725400215632,-0.16399048961447316,0.15241168312639247,2000,-0.16399048961447316,0.15241168312639247,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Cycling monocyte (Ye 2026),True,0.1902027163011394,0.1541336321764255,-0.03606908412471391,-0.7470532442878765,0.6362747144027956,2000,-0.7470532442878765,0.6362747144027956,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,ISG-high monocyte (positive control),False,0.6453992588351098,0.36764705882352944,-0.2777522000115804,-0.7204037478809915,0.16191949443400844,2000,-0.7204037478809915,0.16191949443400844,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,ISG-high T,True,0.411942376825704,0.44883713689775107,0.03689476007204706,-0.5850463920459604,0.6378332750217065,2000,-0.5850463920459604,0.6378332750217065,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,DN2 / ABC B,True,0.49019607843137264,0.4852941176470589,-0.004901960784313764,-0.7015582201352787,0.6862964043066337,2000,-0.7015582201352787,0.6862964043066337,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,HSPC,True,-0.06803619704615703,0.06297222637685256,0.13100842342300958,-0.4496638016093688,0.7032836520525911,2000,-0.4496638016093688,0.7032836520525911,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Cytotoxic CD4 T,True,0.5784313725490197,0.8157272779446572,0.2372959053956375,-0.15407389251211337,0.7196856348095279,2000,-0.15407389251211337,0.7196856348095279,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Granulocyte-like (LDG),True,0.1584435682707749,0.4580214569909284,0.29957788872015345,-0.1714766331589525,0.7807013331014765,2000,-0.1714766331589525,0.7807013331014765,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,Platelet signal in monocytes (negative control),False,0.5490196078431373,0.17167385201006033,-0.37734575583307695,-1.0584180031519421,0.27187161030031914,2000,-1.0584180031519421,0.27187161030031914,n.s.
+main,58 pairs vs full FT,scratch_full__raw,real_full__raw,MEAN13,True,0.2740847006604337,0.4284518728189988,0.1543671721585651,-0.008216269484383119,0.31307021869357193,2000,-0.008216269484383119,0.31307021869357193,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,C1Q-high monocyte (reference),True,0.48967764672562875,0.5479132017519837,0.05823555502635491,-0.3875766743303174,0.5385726593546148,2000,-0.3875766743303174,0.5385726593546148,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Cycling T/NK,True,0.2219524303340527,0.38970588235294124,0.16775345201888853,-0.46122326046662027,0.7280245496791978,2000,-0.46122326046662027,0.7280245496791978,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Cycling activated T (CD38/HLA-DR),True,-0.1898926348413562,0.06617647058823531,0.2560691054295915,-0.2800126871103735,0.8224842645231866,2000,-0.2800126871103735,0.8224842645231866,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Proliferating T (label),True,0.6200980392156864,0.6397058823529412,0.019607843137254832,-0.3772097572660492,0.43924697706182436,2000,-0.3772097572660492,0.43924697706182436,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Plasmablast (label),True,0.16717964623201664,0.13153104519724837,-0.035648601034768274,-0.7453366324077852,0.704692286681506,2000,-0.7453366324077852,0.704692286681506,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Plasmablast (markers),True,0.19299415042960744,0.321472634628895,0.1284784841992876,-0.4853154906998039,0.7815470848901355,2000,-0.4853154906998039,0.7815470848901355,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,MS1 monocyte (IL1R2+),True,0.8967590638830791,0.874695514904512,-0.022063548978567105,-0.283502675451162,0.217679468632865,2000,-0.283502675451162,0.217679468632865,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Cycling monocyte (Ye 2026),True,-0.032839478871459264,0.2618036456085128,0.2946431244799721,-0.4310894032521671,1.021391378375198,2000,-0.4310894032521671,1.021391378375198,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,ISG-high monocyte (positive control),False,0.3126857262223895,0.5233431030187108,0.2106573767963213,-0.32773389397252956,0.8069204290352954,2000,-0.32773389397252956,0.8069204290352954,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,ISG-high T,True,0.44143872255328265,0.5260577322308277,0.0846190096775451,-0.46472401353347603,0.5690553728170733,2000,-0.46472401353347603,0.5690553728170733,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,DN2 / ABC B,True,0.594596389345202,0.3995098039215687,-0.19508658542363327,-0.7535899483062872,0.3696425522624372,2000,-0.7535899483062872,0.3696425522624372,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,HSPC,True,0.3822020818527145,-0.16102327005563216,-0.5432253519083466,-1.1785106964225014,0.2328095950133323,2000,-1.1785106964225014,0.2328095950133323,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Cytotoxic CD4 T,True,0.3921568627450981,0.8452113964245845,0.45305453367948645,-0.01033144268445924,1.0012795726040702,2000,-0.01033144268445924,1.0012795726040702,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Granulocyte-like (LDG),True,0.4642057272069001,0.3360300182731919,-0.12817570893370822,-0.6545050681899053,0.4471467088020889,2000,-0.6545050681899053,0.4471467088020889,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,Platelet signal in monocytes (negative control),False,0.12941176470588234,0.06372549019607844,-0.0656862745098039,-0.767427848986443,0.5347534628774593,2000,-0.767427848986443,0.5347534628774593,n.s.
+main,recipes,scratch_recipe__raw,lora_recipe__raw,MEAN13,True,0.35696374206234255,0.39836845832152384,0.041404716259181296,-0.1059094454821153,0.21725511895356772,2000,-0.1059094454821153,0.21725511895356772,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,C1Q-high monocyte (reference),True,0.4093137254901961,0.3154673891882782,-0.09384633630191791,-0.8023851634409277,0.5410118979535896,1999,-0.8023851634409277,0.5410118979535896,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Cycling T/NK,True,-0.10727700799479216,0.24402211821430003,0.3512991262090922,-0.5215219215865566,1.1085115841291526,2000,-0.5215219215865566,1.1085115841291526,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Cycling activated T (CD38/HLA-DR),True,-0.5490196078431373,-0.19656078986618247,0.35245881797695483,-0.23278505235005206,0.9745731211625356,2000,-0.23278505235005206,0.9745731211625356,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Proliferating T (label),True,0.43137254901960786,0.286764705882353,-0.1446078431372549,-0.8185051524311887,0.535530118876394,2000,-0.8185051524311887,0.535530118876394,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Plasmablast (label),True,0.38619026144735963,0.16150576220789933,-0.2246844992394603,-0.913884966967232,0.482829312240059,2000,-0.913884966967232,0.482829312240059,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Plasmablast (markers),True,0.4220503901938074,0.24985614328161104,-0.17219424691219637,-0.7665918311125189,0.3502180606987845,2000,-0.7665918311125189,0.3502180606987845,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,MS1 monocyte (IL1R2+),True,0.7818627450980392,0.7904215329137396,0.008558787815700408,-0.3411611671526107,0.3971115620380866,2000,-0.3411611671526107,0.3971115620380866,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Cycling monocyte (Ye 2026),True,0.17777724028126524,0.38746560113990985,0.20968836085864462,-0.5834738706572031,0.9529051021449098,2000,-0.5834738706572031,0.9529051021449098,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,ISG-high monocyte (positive control),False,-0.21813725490196081,0.20098039215686278,0.4191176470588236,0.0271095297029703,0.8258332393413034,2000,0.0271095297029703,0.8258332393413034,pretrained tracks better
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,ISG-high T,True,0.007371029619981842,-0.1233069057411404,-0.13067793536112224,-0.9694340637846868,0.7442788898816824,2000,-0.9694340637846868,0.7442788898816824,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,DN2 / ABC B,True,0.32598039215686275,-0.06862745098039216,-0.39460784313725494,-0.8900904255319149,0.2084823771650044,2000,-0.8900904255319149,0.2084823771650044,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,HSPC,True,0.1347420139090739,0.4279940390215953,0.29325202511252135,-0.5115113782003993,1.0304536830867903,2000,-0.5115113782003993,1.0304536830867903,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Cytotoxic CD4 T,True,-0.39460784313725494,0.2626608939396687,0.6572687370769237,-0.0569017248207125,1.250827509547048,2000,-0.0569017248207125,1.250827509547048,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Granulocyte-like (LDG),True,0.4034639472628964,0.2594277581571397,-0.14403618910575672,-0.7807875113455407,0.3777504648938527,2000,-0.7807875113455407,0.3777504648938527,n.s.
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,Platelet signal in monocytes (negative control),False,-0.37500000000000006,0.24754901960784317,0.6225490196078433,0.030262658242683867,1.1663665852193565,2000,0.030262658242683867,1.1663665852193565,pretrained tracks better
+reference,zs ref: 5 pairs,scratch_n5__raw,zs__raw,MEAN13,True,0.18686306426953125,0.2305454459506754,0.04368238168114413,-0.15884390534874515,0.2255631087200985,1999,-0.15880607951795528,0.22555288072378366,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,C1Q-high monocyte (reference),True,0.508601043778747,0.3154673891882782,-0.19313365459046883,-0.6314873435896805,0.21255714274302415,1999,-0.6314873435896805,0.21255714274302415,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Cycling T/NK,True,-0.1712290602468288,0.24402211821430003,0.4152511784611288,-0.47963876300794783,1.2398268813623468,2000,-0.47963876300794783,1.2398268813623468,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Cycling activated T (CD38/HLA-DR),True,-0.5686274509803922,-0.19656078986618247,0.3720666611142098,-0.30896250196352076,1.079939645453679,2000,-0.30896250196352076,1.079939645453679,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Proliferating T (label),True,0.48774509803921573,0.286764705882353,-0.20098039215686275,-0.9839223931686849,0.6352203736611919,2000,-0.9839223931686849,0.6352203736611919,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Plasmablast (label),True,0.43200400819779466,0.16150576220789933,-0.27049824598989536,-0.7348055211676304,0.2045769566407051,2000,-0.7348055211676304,0.2045769566407051,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Plasmablast (markers),True,0.1998774134117131,0.24985614328161104,0.04997872986989793,-0.5253623470928575,0.5811429807477091,2000,-0.5253623470928575,0.5811429807477091,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,MS1 monocyte (IL1R2+),True,0.9135501410535354,0.7904215329137396,-0.12312860813979576,-0.44388327808870254,0.12004598502116845,2000,-0.44388327808870254,0.12004598502116845,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Cycling monocyte (Ye 2026),True,0.1902027163011394,0.38746560113990985,0.19726288483877044,-0.5197777188086992,0.8265151071835743,2000,-0.5197777188086992,0.8265151071835743,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,ISG-high monocyte (positive control),False,0.6453992588351098,0.20098039215686278,-0.44441886667824704,-1.0832349960938408,0.23643714694962736,2000,-1.0832349960938408,0.23643714694962736,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,ISG-high T,True,0.411942376825704,-0.1233069057411404,-0.5352492825668445,-1.331124577734282,0.35328938045804503,2000,-1.331124577734282,0.35328938045804503,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,DN2 / ABC B,True,0.49019607843137264,-0.06862745098039216,-0.5588235294117648,-1.2892890308138407,0.34643558876435465,2000,-1.2892890308138407,0.34643558876435465,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,HSPC,True,-0.06803619704615703,0.4279940390215953,0.4960302360677523,-0.2968851388197029,1.1536618894329498,2000,-0.2968851388197029,1.1536618894329498,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Cytotoxic CD4 T,True,0.5784313725490197,0.2626608939396687,-0.315770478609351,-0.7946840984701165,0.1603579633222477,2000,-0.7946840984701165,0.1603579633222477,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Granulocyte-like (LDG),True,0.1584435682707749,0.2594277581571397,0.10098418988636479,-0.5649925567550127,0.7143201368323606,2000,-0.5649925567550127,0.7143201368323606,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,Platelet signal in monocytes (negative control),False,0.5490196078431373,0.24754901960784317,-0.30147058823529416,-0.9715817598859994,0.3941386316931811,2000,-0.9715817598859994,0.3941386316931811,n.s.
+reference,zs ref: 58 pairs,scratch_full__raw,zs__raw,MEAN13,True,0.2740847006604337,0.2305454459506754,-0.043539254709758335,-0.2950462561200178,0.19795913115271702,1999,-0.29503069200673504,0.19792938014814435,n.s.
+reference,zs ref: recipes,scratch_recipe__raw,zs__raw,C1Q-high monocyte (reference),True,0.48967764672562875,0.3154673891882782,-0.17421025753735053,-0.7093139908647055,0.26525445634862627,1999,-0.7093139908647055,0.26525445634862627,n.s.
+reference,zs ref: recipes,scratch_recipe__raw,zs__raw,Cycling T/NK,True,0.2219524303340527,0.24402211821430003,0.022069687880247324,-0.7282950042313419,0.7684378075829116,2000,-0.7282950042313419,0.7684378075829116,n.s.
+reference,zs ref: recipes,scratch_recipe__raw,zs__raw,Cycling activated T (CD38/HLA-DR),True,-0.1898926348413562,-0.19656078986618247,-0.006668155024826261,-0.6162145037829969,0.5731047829161731,2000,-0.6162145037829969,0.5731047829161731,n.s.
+reference,zs ref: recipes,scratch_recipe__raw,zs__raw,Proliferating T (label),True,0.6200980392156864,0.286764705882353,-0.3333333333333334,-0.9357928479183322,0.3425302770859276,2000,-0.9357928479183322,0.3425302770859276,n.s.
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paper-releases/pbisc-diffusion/updates/20261005T142225Z-rare-states-scratch-vs-pretrained/diffusion/dataset/server_1/model8/plans/rare_states_screen_20261004/out/scratch_vs_lora_20261005/within_arm_fidelity.csv

@@ -0,0 +1,129 @@
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