Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261004T065028Z-behcet-c1q-k4000-corpus/diffusion/dataset/server_1/model8/plans/behcet_c1q_lora3_20261004/out/rules_groups_k4000/per_arm/obs_thin_zsk4/rule_A/group.csv

@@ -0,0 +1,25 @@
+cohort,group,metric,mean_delta,median_delta,signed_fraction_positive,signed_cliffs_vs_zero,wilcoxon_p,n,statistic,module,is_primary,sd_delta,sem_delta,iqr_delta,min_delta,max_delta,ci95_lo,ci95_hi
+obs_thin_zsk4,BD,ifng_response_log2fc_bgcorr_high_vs_other,0.30534586043186757,0.2733866040530669,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,ifng_response,True,0.14995067896384817,0.07497533948192409,0.09540103536441727,0.1593537977510264,0.5152564358703099,0.06674086831022655,0.5439508525535086
+obs_thin_zsk4,BD,ifng_response_log2fc_high_vs_other,-0.6251977795072488,-0.5666092066470789,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,ifng_response,False,0.18990300549270453,0.09495150274635226,0.16528495136994537,-0.897596366126695,-0.469976338608142,-0.9273758386035134,-0.32301972041098415
+obs_thin_zsk4,BD,ifng_response_c1q_high_minus_other,0.09729206633725869,0.0935845420705134,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,ifng_response,False,0.030240668313504408,0.015120334156752204,0.02289439633845558,0.06446551170007461,0.1375336695079334,0.04917241476544759,0.1454117179090698
+obs_thin_zsk4,BD,proinflammatory_log2fc_bgcorr_high_vs_other,-0.09476044518653086,-0.10106011921850473,0.25,-0.5,0.25,4,pseudobulk_log2fc_bgcorr_high_vs_other,proinflammatory,True,0.10340316777676414,0.05170158388838207,0.14704586973557354,-0.19898073461800378,0.022059192308889797,-0.25929795980942805,0.06977706943636634
+obs_thin_zsk4,BD,proinflammatory_log2fc_high_vs_other,-0.8678895618308018,-0.8368737050484762,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,proinflammatory,False,0.23128162468113309,0.11564081234056654,0.1753580110179752,-1.1777215198024535,-0.6200893174238014,-1.2359102378040445,-0.4998688858575592
+obs_thin_zsk4,BD,proinflammatory_c1q_high_minus_other,0.018491862352658095,0.017853564357951254,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,proinflammatory,False,0.009902655813312896,0.004951327906656448,0.01155170719724577,0.007675857101550859,0.030584463593179012,0.002734527149871168,0.03424919755544502
+obs_thin_zsk4,BD,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,0.16033236765157133,0.1579347084985166,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen,True,0.042998025365357476,0.021499012682678738,0.056860618981939615,0.11500345116980523,0.2104566024394469,0.0919129141723328,0.22875182113080986
+obs_thin_zsk4,BD,phagocytosis_antigen_log2fc_high_vs_other,-0.6339099540145039,-0.6480914977991361,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen,False,0.14008626801285073,0.07004313400642537,0.20101497267496127,-0.7675607841096963,-0.47189603635004745,-0.856818467043744,-0.41100144098526387
+obs_thin_zsk4,BD,phagocytosis_antigen_c1q_high_minus_other,0.11349251599898916,0.10762740740352761,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen,False,0.024148516674829444,0.012074258337414722,0.01568560394141888,0.09098638368510359,0.14772886550379782,0.07506683716404267,0.15191819483393565
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_log2fc_bgcorr_high_vs_other,0.9473376484718455,0.8952027301224383,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_mhcii_fcgr,True,0.4843892463693253,0.24219462318466264,0.7259171215016034,0.5047781384120679,1.494166995230438,0.1765662647582361,1.7181090321854549
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_log2fc_high_vs_other,0.4441048798470253,0.4548985182225185,0.75,0.5,0.25,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr,False,0.4766821060650094,0.2383410530325047,0.7684147453002914,-0.02693185928541507,0.8935543422284792,-0.3144027237736975,1.202612483467748
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_c1q_high_minus_other,0.6442739898627682,0.6086899029287054,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen_mhcii_fcgr,False,0.09915359033728222,0.04957679516864111,0.062188842415243584,0.5694358976005092,0.7902802559931527,0.4864985012505191,0.8020494784750173
+obs_thin_zsk4,HC,ifng_response_log2fc_bgcorr_high_vs_other,0.26652516595603826,0.24931510653806296,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,ifng_response,True,0.14232331330741815,0.07116165665370908,0.13678603136230058,0.11468605121709552,0.4527843995309314,0.040057014660574014,0.4929933172515025
+obs_thin_zsk4,HC,ifng_response_log2fc_high_vs_other,-0.9512355293779018,-0.9165126347643188,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,ifng_response,False,0.5322454923875038,0.2661227461937519,0.7207833543905549,-1.5696996394780698,-0.4022172085049,-1.7981568797541616,-0.10431417900164208
+obs_thin_zsk4,HC,ifng_response_c1q_high_minus_other,0.11166357490060735,0.1062113266242689,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,ifng_response,False,0.03392765938748961,0.016963829693744804,0.044565758697406935,0.08017662799776787,0.1540550183561237,0.05767709776828715,0.16565005203292754
+obs_thin_zsk4,HC,proinflammatory_log2fc_bgcorr_high_vs_other,-0.09260000223324259,-0.07033222128514968,0.5,0.0,0.625,4,pseudobulk_log2fc_bgcorr_high_vs_other,proinflammatory,True,0.2574582119322106,0.1287291059661053,0.3244440082580262,-0.4049161730414614,0.17518060667879037,-0.5022734698975493,0.31707346543106407
+obs_thin_zsk4,HC,proinflammatory_log2fc_high_vs_other,-1.1065954587359865,-1.208598518012444,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,proinflammatory,False,0.42510777720545495,0.21255388860272748,0.44740730988554667,-1.4854518479197192,-0.5237329509993395,-1.7830367961934215,-0.4301541212785517
+obs_thin_zsk4,HC,proinflammatory_c1q_high_minus_other,0.03431788110487714,0.036245747852941386,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,proinflammatory,False,0.019842971171510737,0.009921485585755369,0.024734925551751615,0.009989955874190215,0.0547900728394356,0.002743285959564405,0.06589247625018987
+obs_thin_zsk4,HC,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,0.23269850164405032,0.21342860699438004,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen,True,0.10226962431646776,0.05113481215823388,0.08834933235074477,0.1311416437870132,0.372795148800428,0.0699647076197025,0.3954322956683981
+obs_thin_zsk4,HC,phagocytosis_antigen_log2fc_high_vs_other,-0.7570825224360365,-0.5930854144244873,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen,False,0.5286580826538694,0.2643290413269347,0.4846413879225048,-1.5123056277669165,-0.3298536331282547,-1.5982955033861241,0.08413045851405132
+obs_thin_zsk4,HC,phagocytosis_antigen_c1q_high_minus_other,0.14528309005086118,0.14129341770360276,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen,False,0.025692526484013302,0.012846263242006651,0.03394804583738717,0.1213265377046483,0.1772189870915909,0.10440054705963521,0.18616563304208716
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_log2fc_bgcorr_high_vs_other,0.7975741204466874,0.8968174893601223,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_mhcii_fcgr,True,0.31676627331409996,0.15838313665704998,0.2435225696462664,0.33917114150815963,1.0574903615583455,0.2935282923732141,1.3016199485201607
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_log2fc_high_vs_other,0.2556148926181208,0.45665653353959296,0.75,0.5,0.625,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr,False,0.6513603988760399,0.32568019943801996,0.3728198111748285,-0.6907924724492593,0.7999389758425567,-0.7808448547874669,1.2920746400237084
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_c1q_high_minus_other,0.6752382264156848,0.6566487566482399,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen_mhcii_fcgr,False,0.05637535140390529,0.028187675701952644,0.04892807044070324,0.6310638219402525,0.7565915704260068,0.5855324620234702,0.7649439908078993

paper-releases/pbisc-diffusion/updates/20261004T065028Z-behcet-c1q-k4000-corpus/diffusion/dataset/server_1/model8/plans/behcet_c1q_lora3_20261004/out/rules_groups_k4000/per_arm/obs_thin_zsk4/rule_A/sample.csv

@@ -0,0 +1,9 @@
+cohort,sample_id,group,source,n_monocytes,n_c1q_high,c1q_high_fraction,ifng_response_mean_c1q_high,ifng_response_mean_other,ifng_response_c1q_high_minus_other,proinflammatory_mean_c1q_high,proinflammatory_mean_other,proinflammatory_c1q_high_minus_other,phagocytosis_antigen_mean_c1q_high,phagocytosis_antigen_mean_other,phagocytosis_antigen_c1q_high_minus_other,ifng_response_log2fc_bgcorr_high_vs_other,proinflammatory_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_mhcii_fcgr_log2fc_bgcorr_high_vs_other,ifng_response_log2fc_high_vs_other,proinflammatory_log2fc_high_vs_other,phagocytosis_antigen_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr_mean_c1q_high,phagocytosis_antigen_mhcii_fcgr_mean_other,phagocytosis_antigen_mhcii_fcgr_c1q_high_minus_other,background_log2fc_all_genes
+obs_thin_zsk4,PBMC_BD_1,BD,real,489,36,0.0736196319018405,0.31441946293985423,0.21775001627834692,0.09666944666150731,0.1762130285368408,0.15447642712933038,0.02173660140751041,0.5192453963652859,0.4106179999705947,0.10862739639469116,0.5152564358703099,-0.03986952721593795,0.11500345116980523,0.5761561252577644,-0.5276892436535408,-0.8608403453306844,-0.7675607841096963,-0.02693185928541507,1.8651804567652133,1.2518387186251194,0.6133417381400939,-0.8023409717680333
+obs_thin_zsk4,PBMC_BD_2,BD,real,946,57,0.06025369978858351,0.31221322940915897,0.2217135919296395,0.09049963747951947,0.14761358131511165,0.13364305400671955,0.0139705273083921,0.5184033627489547,0.41177594433659065,0.10662741841236406,0.27767018794279785,0.022059192308889797,0.1799329292748694,0.5047781384120679,-0.469976338608142,-0.6200893174238014,-0.47189603635004745,0.09603638827463994,1.7581734061402836,1.1541353384229667,0.6040380677173169,-0.6839316237372827
+obs_thin_zsk4,PBMC_BD_3,BD,real,735,39,0.053061224489795916,0.3086813100510423,0.2442157983509677,0.06446551170007461,0.1729224919020989,0.16524663480054805,0.007675857101550859,0.5055027005130052,0.4145163168279016,0.09098638368510359,0.1593537977510264,-0.16225071122107151,0.1359364877221638,1.2142493349871122,-0.605529169640617,-0.8129070647662682,-0.56335897397577,0.8137606481703971,1.6807356885186273,1.1112997909181181,0.5694358976005092,-0.7140401361533817
+obs_thin_zsk4,PBMC_BD_4,BD,real,1402,37,0.026390870185449358,0.32409679436031874,0.18656312485238535,0.1375336695079334,0.16118100108671718,0.13059653749353817,0.030584463593179012,0.4889979198618692,0.34126905435807137,0.14772886550379782,0.26910302016333604,-0.19898073461800378,0.2104566024394469,1.494166995230438,-0.897596366126695,-1.1777215198024535,-0.7328240216225022,0.8935543422284792,1.7693982184886174,0.9791179624954648,0.7902802559931527,-0.9897325061170884
+obs_thin_zsk4,PBMC_HC_1,HC,real,272,23,0.08455882352941177,0.37327055673824305,0.21921553838211935,0.1540550183561237,0.21059043152098955,0.15580035868155395,0.0547900728394356,0.5922001269297678,0.437590086899064,0.15461004003070378,0.2841560693939574,-0.4049161730414614,0.23205257772597407,0.854188979604309,-0.6305708036661439,-1.0706134609088094,-0.467066488249261,0.4567478329408426,1.7255014091659922,1.0805500747305954,0.6449513344353968,-0.6428956475881884
+obs_thin_zsk4,PBMC_HC_2,HC,real,743,19,0.02557200538358008,0.3086948957494721,0.22851826775170425,0.08017662799776787,0.1767088616238748,0.1667189057496846,0.009989955874190215,0.509982576571056,0.38865603886640765,0.1213265377046483,0.11468605121709552,-0.18994543017045853,0.372795148800428,0.9394459991159356,-1.2024544658624936,-1.3465835751160782,-0.7191043405997134,0.4565652341383433,1.7748885978445115,1.143824775904259,0.6310638219402525,-1.0514989233662808
+obs_thin_zsk4,PBMC_HC_3,HC,real,1306,69,0.052833078101071976,0.30502170955974,0.21620782367401642,0.08881388588572359,0.15927986762659413,0.13205738398061292,0.027222483645981205,0.5286003386651897,0.400623543288688,0.12797679537650175,0.21447414368216855,0.04928098760015916,0.194804636262786,1.0574903615583455,-0.4022172085049,-0.5237329509993395,-0.3298536331282547,0.7999389758425567,1.8298000202352134,1.1614538413741304,0.6683461788610829,-0.600882061027243
+obs_thin_zsk4,PBMC_HC_4,HC,real,473,12,0.02536997885835095,0.29753188598615377,0.17392311862333956,0.1236087673628142,0.16552213491989157,0.12025312285999,0.04526901205990157,0.5340104364053565,0.3567914493137656,0.1772189870915909,0.4527843995309314,0.17518060667879037,0.1311416437870132,0.33917114150815963,-1.5696996394780698,-1.4854518479197192,-1.5123056277669165,-0.6907924724492593,1.731412677795421,0.9748211073694143,0.7565915704260068,-1.4545223419398312

paper-releases/pbisc-diffusion/updates/20261004T065028Z-behcet-c1q-k4000-corpus/diffusion/dataset/server_1/model8/plans/behcet_c1q_lora3_20261004/out/rules_groups_k4000/per_arm/obs_thin_zsk4/rule_B/group.csv

@@ -0,0 +1,25 @@
+cohort,group,metric,mean_delta,median_delta,signed_fraction_positive,signed_cliffs_vs_zero,wilcoxon_p,n,statistic,module,is_primary,sd_delta,sem_delta,iqr_delta,min_delta,max_delta,ci95_lo,ci95_hi
+obs_thin_zsk4,BD,ifng_response_log2fc_bgcorr_high_vs_other,0.3824235314863959,0.39625738370080565,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,ifng_response,True,0.12567283036339674,0.06283641518169837,0.19095404634401725,0.24179794258494827,0.4953814159590239,0.18245001415412684,0.5823970488186649
+obs_thin_zsk4,BD,ifng_response_log2fc_high_vs_other,-1.158639029690437,-1.198167976565009,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,ifng_response,False,0.09956504791898639,0.049782523959493195,0.0850815840160617,-1.2253690757547133,-1.0128510898770162,-1.3170692391330237,-1.0002088202478503
+obs_thin_zsk4,BD,ifng_response_c1q_high_minus_other,0.11842834884773912,0.10957110765973035,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,ifng_response,False,0.031259951141762485,0.015629975570881242,0.03477761307278045,0.0930798530355536,0.16149132703594218,0.06868679084051349,0.16816990685496475
+obs_thin_zsk4,BD,proinflammatory_log2fc_bgcorr_high_vs_other,-0.004319652632524852,0.0073414937287423244,0.5,0.0,1.0,4,pseudobulk_log2fc_bgcorr_high_vs_other,proinflammatory,True,0.08818026385055291,0.04409013192527646,0.10411231402896853,-0.11649223055626343,0.08453063256867936,-0.14463413007759215,0.13599482481254246
+obs_thin_zsk4,BD,proinflammatory_log2fc_high_vs_other,-1.260393631489104,-1.2672149641690666,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,proinflammatory,False,0.21621214451872964,0.10810607225936482,0.19631032847581809,-1.5145369584752741,-0.9926076391430084,-1.6044354017296532,-0.9163518612485548
+obs_thin_zsk4,BD,proinflammatory_c1q_high_minus_other,0.03513432464677685,0.03593394808292162,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,proinflammatory,False,0.010298231792740935,0.0051491158963704676,0.01536641128263963,0.023710535550750922,0.04495886687051323,0.018747539786895046,0.051521109506658655
+obs_thin_zsk4,BD,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,0.16603265782519142,0.15981081340732062,0.75,0.5,0.25,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen,True,0.1425299419353397,0.07126497096766984,0.11140116839768996,-0.0013122117586167542,0.34582121624474116,-0.06076428572702017,0.39282960137740297
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paper-releases/pbisc-diffusion/updates/20261004T065028Z-behcet-c1q-k4000-corpus/diffusion/dataset/server_1/model8/plans/behcet_c1q_lora3_20261004/out/rules_groups_k4000/per_arm/obs_thin_zsk4/rule_B/sample.csv

@@ -0,0 +1,9 @@
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