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_C/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,0.39875069596659546,0.4037324557341871,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,ifng_response,True,0.23251516644489886,0.11625758322244943,0.3279700386515945,0.14319487110979048,0.6443430012882172,0.028767179779098095,0.7687342121540928
+obs_thin_zsk4,BD,ifng_response_log2fc_high_vs_other,-0.8669951672720076,-0.9458669894448806,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,ifng_response,False,0.23168460662545445,0.11584230331272723,0.20865428892144489,-1.043382691982258,-0.5328639982160116,-1.235657077445151,-0.4983332570988643
+obs_thin_zsk4,BD,ifng_response_c1q_high_minus_other,0.11532766196222835,0.1011947105017295,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,ifng_response,False,0.042277103337347084,0.021138551668673542,0.045837551123323536,0.0842791417961434,0.17464208504931103,0.048055356305209476,0.18259996761924724
+obs_thin_zsk4,BD,proinflammatory_log2fc_bgcorr_high_vs_other,-0.08720812458032731,-0.08138709996845495,0.25,-0.5,0.25,4,pseudobulk_log2fc_bgcorr_high_vs_other,proinflammatory,True,0.1261654370621913,0.06308271853109565,0.09190803640045785,-0.24700933858848922,0.0609510402040899,-0.28796548909686476,0.11354923993621013
+obs_thin_zsk4,BD,proinflammatory_log2fc_high_vs_other,-1.1271361168598661,-1.0408367556391778,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,proinflammatory,False,0.3066049088104667,0.15330245440523335,0.32602146186817205,-1.5529367416436557,-0.873934214517453,-1.6150129464727252,-0.6392592872470072
+obs_thin_zsk4,BD,proinflammatory_c1q_high_minus_other,0.0306201883119357,0.031624735793636366,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,proinflammatory,False,0.013919769753774708,0.006959884876887354,0.01812149694153376,0.014094297110022719,0.045136984550447345,0.008470728400285586,0.05276964822358581
+obs_thin_zsk4,BD,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,0.14868058795388514,0.12554673768952515,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen,True,0.08718038145500462,0.04359019072750231,0.07740359185227604,0.0718329701027189,0.2717959063337713,0.00995714652653329,0.287404029381237
+obs_thin_zsk4,BD,phagocytosis_antigen_log2fc_high_vs_other,-0.9095269099340464,-0.8769763186508281,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen,False,0.19068511955763517,0.09534255977881759,0.14383102419100835,-1.170173772411801,-0.7139812300227285,-1.2129494870384354,-0.6061043328296574
+obs_thin_zsk4,BD,phagocytosis_antigen_c1q_high_minus_other,0.13226672978401138,0.1252274165020655,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen,False,0.025219063511523566,0.012609531755761783,0.023323631647947193,0.11069197332780056,0.1679201128041139,0.09213757203652971,0.17239588753149304
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_log2fc_bgcorr_high_vs_other,0.7927316852787061,0.5935934529656559,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_mhcii_fcgr,True,0.6161096096807687,0.30805480484038433,0.49419037704355684,0.29877064652740326,1.6849691886561093,-0.18763619021046873,1.7730995607678808
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_log2fc_high_vs_other,0.15751799878503672,-0.019162812508791288,0.25,-0.5,0.875,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr,False,0.5852633541118215,0.29263167705591075,0.3429129508148227,-0.3376239230166174,1.0060215431743469,-0.7737666006705216,1.088802598240595
+obs_thin_zsk4,BD,phagocytosis_antigen_mhcii_fcgr_c1q_high_minus_other,0.6819540376562738,0.6580743673136398,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen_mhcii_fcgr,False,0.09285242340349907,0.046426211701749535,0.08746631233698188,0.5996918964622886,0.8119755195355274,0.5342051117577218,0.8297029635548259
+obs_thin_zsk4,HC,ifng_response_log2fc_bgcorr_high_vs_other,0.24022193412207002,0.2763705165725849,0.75,0.5,0.25,4,pseudobulk_log2fc_bgcorr_high_vs_other,ifng_response,True,0.2560349961031036,0.1280174980515518,0.3157015929811433,-0.0832664237576922,0.49141312710080254,-0.16718687956375525,0.6476307478078953
+obs_thin_zsk4,HC,ifng_response_log2fc_high_vs_other,-1.4619880590635477,-1.3695627233411982,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,ifng_response,False,0.9527827332179127,0.47639136660895637,1.4438344415309434,-2.5211699037361748,-0.5876568858356201,-2.978078003597277,0.0541018854701818
+obs_thin_zsk4,HC,ifng_response_c1q_high_minus_other,0.12378624580161694,0.11987240065618172,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,ifng_response,False,0.035166487928947304,0.017583243964473652,0.039906121207450296,0.08702867957731616,0.1683715023167881,0.06782851601197572,0.17974397559125815
+obs_thin_zsk4,HC,proinflammatory_log2fc_bgcorr_high_vs_other,0.07223167175713882,0.09652579433431538,0.5,0.0,0.625,4,pseudobulk_log2fc_bgcorr_high_vs_other,proinflammatory,True,0.2221015114358021,0.11105075571790105,0.3043709551034828,-0.1923269642350663,0.2882020625949908,-0.281181395476259,0.42564473899053656
+obs_thin_zsk4,HC,proinflammatory_log2fc_high_vs_other,-1.3221090532518738,-1.3924636827305445,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,proinflammatory,False,0.6077309041743991,0.30386545208719956,0.7870068073597005,-1.9256037107035817,-0.5779051368428242,-2.2891445385501457,-0.355073567953602
+obs_thin_zsk4,HC,proinflammatory_c1q_high_minus_other,0.04788575396717398,0.04976091119859851,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,proinflammatory,False,0.025426756193952096,0.012713378096976048,0.03142421450302855,0.01712089888507254,0.07490029458642639,0.007426110814777745,0.08834539711957022
+obs_thin_zsk4,HC,phagocytosis_antigen_log2fc_bgcorr_high_vs_other,0.2213186891481494,0.21566283451875962,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen,True,0.03923161792649445,0.019615808963247224,0.03067967699424809,0.1798339157558132,0.27411517179926514,0.15889243038791223,0.28374494790838656
+obs_thin_zsk4,HC,phagocytosis_antigen_log2fc_high_vs_other,-1.1531118747978137,-1.0063780715400006,0.0,-1.0,0.125,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen,False,0.6425132255183205,0.32125661275916023,0.7632213383464544,-2.00823581606503,-0.5914555400462237,-2.175493795121162,-0.13072995447446534
+obs_thin_zsk4,HC,phagocytosis_antigen_c1q_high_minus_other,0.16728624033937556,0.15828432096207434,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen,False,0.03084930454729738,0.01542465227364869,0.03552706562058544,0.14301935246096975,0.2095569669723838,0.11819811270081634,0.21637436797793477
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_log2fc_bgcorr_high_vs_other,0.744489538552908,0.750111089235034,1.0,1.0,0.125,4,pseudobulk_log2fc_bgcorr_high_vs_other,phagocytosis_antigen_mhcii_fcgr,True,0.15319268955993537,0.07659634477996768,0.0937441795957843,0.5514145365758778,0.926321439165686,0.5007257841096628,0.9882532929961532
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_log2fc_high_vs_other,-0.07110553916764607,-0.00045380179513524344,0.5,0.0,0.875,4,pseudobulk_log2fc_high_vs_other,phagocytosis_antigen_mhcii_fcgr,False,0.38130705159140205,0.19065352579570102,0.24538003242247075,-0.5978004182457157,0.3142858651654019,-0.6778501479254868,0.5356390695901947
+obs_thin_zsk4,HC,phagocytosis_antigen_mhcii_fcgr_c1q_high_minus_other,0.7401584421059433,0.7459245948669534,1.0,1.0,0.125,4,mean_log1p_cp10k_high_minus_other,phagocytosis_antigen_mhcii_fcgr,False,0.04489897739432839,0.022449488697164195,0.06887106131958931,0.6897298610802649,0.7790547176096017,0.6687141497461447,0.8116027344657418

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_C/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,489,26,0.053169734151329244,0.3353548588846416,0.2186622715095577,0.11669258737508392,0.19255988656680414,0.15402793405221604,0.0385319525145881,0.5428756747826113,0.4116371937612999,0.13123848102131142,0.6443430012882172,0.0609510402040899,0.10727149915984986,0.29877064652740326,-0.5328639982160116,-0.873934214517453,-0.8968315777133216,-0.3376239230166174,1.941788514399057,1.2607838760396357,0.6810046383594213,-0.9096362117628375
+obs_thin_zsk4,PBMC_BD_2,BD,real,946,37,0.039112050739957716,0.3081493416431987,0.22387019984705528,0.0842791417961434,0.1480278702113591,0.13393357310133638,0.014094297110022719,0.5327541967698758,0.4135378447870562,0.1192163519828196,0.14319487110979048,-0.09133239443666366,0.14382197621920045,0.49516629195806905,-0.8918505791249584,-0.936656202248097,-0.7139812300227285,-0.023830535353512382,1.766767583395596,1.1670756869333074,0.5996918964622886,-0.8892286176046896
+obs_thin_zsk4,PBMC_BD_3,BD,real,735,19,0.02585034013605442,0.3311179586696336,0.24542112504125854,0.08569683362837507,0.18973248797470135,0.16501496890201672,0.02471751907268463,0.5271747139250775,0.41648274059727697,0.11069197332780056,0.2686104516628619,-0.07144180550024623,0.2717959063337713,1.6849691886561093,-0.9998833997648028,-1.1450173090302587,-0.8571210595883346,1.0060215431743469,1.7602401622571744,1.125096065989316,0.6351440962678583,-1.0646351777822125
+obs_thin_zsk4,PBMC_BD_4,BD,real,1402,20,0.014265335235378032,0.36234351523037495,0.18770143018106392,0.17464208504931103,0.17589677843623847,0.13075979388579112,0.045136984550447345,0.5106924237724265,0.3427723109683126,0.1679201128041139,0.5388544598055123,-0.24700933858848922,0.0718329701027189,0.6920206139732429,-1.043382691982258,-1.5529367416436557,-1.170173772411801,-0.014495089664070197,1.8003665626879368,0.9883910431524094,0.8119755195355274,-1.250436968793129
+obs_thin_zsk4,PBMC_HC_1,HC,real,272,16,0.058823529411764705,0.3907095457912686,0.2223380434744805,0.1683715023167881,0.2309277376868193,0.1560274431003929,0.07490029458642639,0.6114914278319934,0.44061199887476443,0.17087942895722896,0.49141312710080254,-0.1923269642350663,0.2109232591965029,0.5514145365758778,-0.7292585986373284,-1.0924089068008704,-0.733693891978832,-0.012026109508262797,1.8079316055810706,1.0930335755056206,0.7148980300754499,-0.8752178358169207
+obs_thin_zsk4,PBMC_HC_2,HC,real,743,9,0.012113055181695828,0.3165430412937064,0.22951436171639025,0.08702867957731616,0.1838878814471985,0.16676698256212596,0.01712089888507254,0.5356830732326355,0.3899938602657158,0.14568921296691972,-0.0832664237576922,-0.026300004596330286,0.27411517179926514,0.7500994532694792,-2.009866848045068,-1.6925184586602187,-1.2790622511011691,0.01111850591799231,1.8413374685688342,1.1516076074885693,0.6897298610802649,-1.401943977864486
+obs_thin_zsk4,PBMC_HC_3,HC,real,1306,36,0.027565084226646247,0.32478093889888576,0.21795548192442557,0.10682545697446019,0.17087732711845,0.13243599297164488,0.03844133414680512,0.5464619632782823,0.4034426108173126,0.14301935246096975,0.391058320083598,0.2882020625949908,0.22040240984101636,0.7501227252005889,-0.5876568858356201,-0.5779051368428242,-0.5914555400462237,0.3142858651654019,1.952299062742932,1.1753479030844751,0.7769511596584568,-0.8609004418562162
+obs_thin_zsk4,PBMC_HC_4,HC,real,473,5,0.010570824524312896,0.30857334771106154,0.17565400337315829,0.13291934433790326,0.1818364138661258,0.12075592561573391,0.061080488250391904,0.5686292683162492,0.35907230134386536,0.2095569669723838,0.1616827130615718,0.21935159326496104,0.1798339157558132,0.926321439165686,-2.5211699037361748,-1.9256037107035817,-2.00823581606503,-0.5978004182457157,1.764835286410441,0.9857805688008394,0.7790547176096017,-1.7837561877881334

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_D/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
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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_D/sample.csv

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