Archive 4 checkpoints (1-4)
Browse files- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_cibersortx/summary.json +111 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/contrast.csv +17 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/per_donor.csv +34 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/summary.json +164 -0
paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_cibersortx/summary.json
ADDED
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| 1 |
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{
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| 2 |
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"dataset": "ji2025_chili",
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| 3 |
+
"comparison": "cv",
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| 4 |
+
"draw": null,
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| 5 |
+
"gene_mode": "cibersortx",
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| 6 |
+
"stored_scores": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ji2025_chili/pooled",
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| 7 |
+
"lora_arm": "real_lora__raw",
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| 8 |
+
"n_donors": 33,
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| 9 |
+
"contrast": true,
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| 10 |
+
"genes_scoring": 5752,
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| 11 |
+
"genes_covered_by_Z_all_donors": 0,
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| 12 |
+
"bayesprism": {
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| 13 |
+
"comp_l1": 0.914073829946989,
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| 14 |
+
"comp_l1_by_variant": {
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| 15 |
+
"final_cells": 0.914073829946989,
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| 16 |
+
"first_cells": 0.914073829946989,
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| 17 |
+
"final_mrna": 0.9502242518422143,
|
| 18 |
+
"first_mrna": 0.9502242518422143
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| 19 |
+
},
|
| 20 |
+
"mean_fraction": {
|
| 21 |
+
"final_cells": {
|
| 22 |
+
"T cell": 0.2995,
|
| 23 |
+
"B cell": 0.0293,
|
| 24 |
+
"Monocyte": 0.1191,
|
| 25 |
+
"NK cell": 0.0932,
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| 26 |
+
"DC": 0.0492,
|
| 27 |
+
"Other": 0.4096
|
| 28 |
+
},
|
| 29 |
+
"first_cells": {
|
| 30 |
+
"T cell": 0.2995,
|
| 31 |
+
"B cell": 0.0293,
|
| 32 |
+
"Monocyte": 0.1191,
|
| 33 |
+
"NK cell": 0.0932,
|
| 34 |
+
"DC": 0.0492,
|
| 35 |
+
"Other": 0.4096
|
| 36 |
+
},
|
| 37 |
+
"final_mrna": {
|
| 38 |
+
"T cell": 0.264,
|
| 39 |
+
"B cell": 0.0314,
|
| 40 |
+
"Monocyte": 0.1452,
|
| 41 |
+
"NK cell": 0.0817,
|
| 42 |
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"DC": 0.0925,
|
| 43 |
+
"Other": 0.3853
|
| 44 |
+
},
|
| 45 |
+
"first_mrna": {
|
| 46 |
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"T cell": 0.264,
|
| 47 |
+
"B cell": 0.0314,
|
| 48 |
+
"Monocyte": 0.1452,
|
| 49 |
+
"NK cell": 0.0817,
|
| 50 |
+
"DC": 0.0925,
|
| 51 |
+
"Other": 0.3853
|
| 52 |
+
}
|
| 53 |
+
}
|
| 54 |
+
},
|
| 55 |
+
"observed_mean_fraction": {
|
| 56 |
+
"T cell": 0.4795,
|
| 57 |
+
"B cell": 0.0555,
|
| 58 |
+
"Monocyte": 0.2636,
|
| 59 |
+
"NK cell": 0.1558,
|
| 60 |
+
"DC": 0.0141,
|
| 61 |
+
"Other": 0.0316
|
| 62 |
+
},
|
| 63 |
+
"lora": {
|
| 64 |
+
"comp_l1": 0.5044992874562503,
|
| 65 |
+
"coverage": 0.8569696969696969
|
| 66 |
+
},
|
| 67 |
+
"broadcast": {},
|
| 68 |
+
"other_arms": {
|
| 69 |
+
"pseudo_full__cal": {
|
| 70 |
+
"comp_l1": 0.6091384923396889,
|
| 71 |
+
"logfc_r_mean_cp10k": 0.24531460669665245,
|
| 72 |
+
"deg_top50_sum": 0
|
| 73 |
+
},
|
| 74 |
+
"pseudo_full__raw": {
|
| 75 |
+
"comp_l1": 0.5961315525241302,
|
| 76 |
+
"logfc_r_mean_cp10k": 0.15313939481653605,
|
| 77 |
+
"deg_top50_sum": 0
|
| 78 |
+
},
|
| 79 |
+
"zs__cal": {
|
| 80 |
+
"comp_l1": 0.5005691181619872,
|
| 81 |
+
"logfc_r_mean_cp10k": 0.14191696206220386,
|
| 82 |
+
"deg_top50_sum": 0
|
| 83 |
+
},
|
| 84 |
+
"zs__pseudo": {
|
| 85 |
+
"comp_l1": 0.17264241990648327,
|
| 86 |
+
"logfc_r_mean_cp10k": 0.1410924404745027,
|
| 87 |
+
"deg_top50_sum": 5
|
| 88 |
+
},
|
| 89 |
+
"zs__raw": {
|
| 90 |
+
"comp_l1": 0.7378376387839275,
|
| 91 |
+
"logfc_r_mean_cp10k": 0.08352233208682591,
|
| 92 |
+
"deg_top50_sum": 0
|
| 93 |
+
}
|
| 94 |
+
},
|
| 95 |
+
"gates": {
|
| 96 |
+
"observed_composition_equal": true
|
| 97 |
+
},
|
| 98 |
+
"method": "cibersortx",
|
| 99 |
+
"has_cell_type_expression": false,
|
| 100 |
+
"hires_imputed_genes": {},
|
| 101 |
+
"scsemi_cv": {
|
| 102 |
+
"pooled": {
|
| 103 |
+
"comp_l1": 0.575388570715078,
|
| 104 |
+
"logfc_r_mean_cp10k": 0.2730887293849816,
|
| 105 |
+
"deg_top50_sum": 0
|
| 106 |
+
}
|
| 107 |
+
},
|
| 108 |
+
"tool_sha256": "b541f68dc286497e8347d487af58ff3550a383d126eeabe347c0726e4fb28799",
|
| 109 |
+
"score_ft_sha256": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
|
| 110 |
+
"seconds": 5.1
|
| 111 |
+
}
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paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/contrast.csv
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@@ -0,0 +1,17 @@
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| 1 |
+
genes,celltype,statistic,n_genes,r_generated,r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast
|
| 2 |
+
zero_filled,T cell,mean_cp10k,3021,0.0981486912304436,0.22039608693345034,-0.057272015921008036,0.6400729736630658
|
| 3 |
+
zero_filled,T cell,pseudobulk_log1p_cpm,3021,0.2159929175236472,0.27145331834905573,0.03333402404656079,0.7127977175345995
|
| 4 |
+
zero_filled,B cell,mean_cp10k,3245,0.10149694059283455,0.13326750229861392,0.013484694000394013,0.688913924634014
|
| 5 |
+
zero_filled,B cell,pseudobulk_log1p_cpm,3245,0.07322810185666752,0.01993963216355321,0.12190597931914454,0.890418972712352
|
| 6 |
+
zero_filled,Monocyte,mean_cp10k,3154,0.44034459778021723,0.3983317004681723,0.20940459626334257,0.8569385826994771
|
| 7 |
+
zero_filled,Monocyte,pseudobulk_log1p_cpm,3154,0.3571770989672683,0.35676796217145185,0.06501171388893444,0.9459267045290964
|
| 8 |
+
zero_filled,NK cell,mean_cp10k,3051,0.10316854721845703,0.20750320008350984,-0.08392281303349579,0.7561123101968804
|
| 9 |
+
zero_filled,NK cell,pseudobulk_log1p_cpm,3051,0.07558276924228592,0.10364196133517908,-0.045474052124488094,0.9101033133683433
|
| 10 |
+
covered,T cell,mean_cp10k,2831,0.11959132416755787,0.17470799646732876,-0.014941818054724582,0.7410622815722154
|
| 11 |
+
covered,T cell,pseudobulk_log1p_cpm,2831,0.2521717727259801,0.2840163760631044,0.0646112646031507,0.7415359094187448
|
| 12 |
+
covered,B cell,mean_cp10k,3054,0.11040522561718462,0.09586922912673351,0.05670370695521353,0.7927734524285848
|
| 13 |
+
covered,B cell,pseudobulk_log1p_cpm,3054,0.07456543310083934,0.025047891486499822,0.1455504894847263,0.9362679776931768
|
| 14 |
+
covered,Monocyte,mean_cp10k,2972,0.4524641775054724,0.41578226933813733,0.19646842160601832,0.926282194662329
|
| 15 |
+
covered,Monocyte,pseudobulk_log1p_cpm,2972,0.3650300942493581,0.35208004787048874,0.10761629552370476,0.9803588861921063
|
| 16 |
+
covered,NK cell,mean_cp10k,2866,0.13163808003243002,0.16273115116755893,-0.018082253953644725,0.8641100379269527
|
| 17 |
+
covered,NK cell,pseudobulk_log1p_cpm,2866,0.08115103260588649,0.1000754013450576,-0.04992333945118687,0.9561955776064966
|
paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/per_donor.csv
ADDED
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| 1 |
+
donor,group,bp_comp_l1_final_cells,bp_comp_l1_first_cells,bp_comp_l1_final_mrna,bp_comp_l1_first_mrna,lora_comp_l1,bp_first_T cell,bp_final_T cell,obs_T cell,bp_first_B cell,bp_final_B cell,obs_B cell,bp_first_Monocyte,bp_final_Monocyte,obs_Monocyte,bp_first_NK cell,bp_final_NK cell,obs_NK cell,bp_first_DC,bp_final_DC,obs_DC,bp_first_Other,bp_final_Other,obs_Other
|
| 2 |
+
N064_TOL,TOL,0.7788845647787318,0.8148221887228723,0.9366535079531422,0.949032241264754,0.1603234587670136,0.24902220002398748,0.2722817725999303,0.6517213771016813,0.0671650695238913,0.061093907508379154,0.044035228182546036,0.4089353555667893,0.4427341642559817,0.1677341873498799,0.1423228142855222,0.12890311058337356,0.07606084867894315,0.005296089121381801,5.328517509207541e-06,0.010008006405124099,0.12725847147842786,0.09498171653482602,0.05044035228182546
|
| 3 |
+
N064_FU1,FU1,0.8676368946485711,0.958555984351176,1.0511362409462115,1.1075424533161287,0.5459111397295558,0.17458012119888536,0.2366052691295459,0.6396222365314446,0.035878174192441215,0.02520886148772383,0.016527151749302426,0.38981535277628354,0.42035609559565074,0.13865636402661516,0.17943890341777344,0.1655897371431872,0.19167203262502683,0.0027192957211682406,2.858916396233222e-06,0.00472204335694355,0.2175681526934483,0.15223717772749606,0.008800171710667526
|
| 4 |
+
N032_AC,AC,0.9108357111238449,1.1606142778844568,1.0299760720994042,1.1969852798340508,0.2769523809523809,0.04892941311551808,0.2022717479227584,0.5891156462585034,0.0914796637522596,0.06693451499292374,0.10979591836734694,0.2949180978617597,0.3145231536846693,0.17551020408163265,0.058226638666912536,0.04723647909158641,0.04707482993197279,0.003909634530129922,1.73186253151458e-06,0.025714285714285714,0.5025365520734201,0.3690323724455306,0.0527891156462585
|
| 5 |
+
N038_BC,BC,1.054073025551542,1.2092278853134089,1.1775898096823134,1.2768168976790444,0.2023086992740687,0.04364371308501708,0.13169490596783678,0.5608711174580507,0.05944327386446643,0.03645441369684201,0.0046411995715815784,0.36537559478232934,0.3888804194104221,0.16565512317029632,0.15792669704636988,0.1534733169590521,0.2170653338093538,0.006025572238684704,5.189324116371583e-06,0.034273473759371655,0.3675851489831326,0.2894917546417307,0.017493752231345947
|
| 6 |
+
N038_AC,AC,1.2754374567413238,1.4038786072599458,1.3345907344795425,1.4318014143884077,0.3745700871898054,0.007808337903211782,0.07731699301044388,0.6830985915492958,0.03778495912626846,0.020583799094933113,0.00829979879275654,0.39549870171399837,0.41815916066030623,0.1290241448692153,0.1276362746267061,0.13830258940609805,0.12072434607645875,0.005292599915507488,4.520067586296732e-06,0.03194164989939638,0.42597912671430793,0.3456329377606324,0.026911468812877263
|
| 7 |
+
N055_AC,AC,0.9321164265685675,1.0084495998958531,0.984344815272198,1.0432001068394623,0.1382692664809656,7.914509875583772e-05,4.79425072150255e-05,0.340297121634169,0.027445867995864983,0.020109675114828564,0.07799442896935933,0.49983610885127716,0.548959505603824,0.32474466109563604,0.09550040117789538,0.14330839343722448,0.2051996285979573,0.0022762481751004405,2.238051991440363e-06,0.0060352831940575676,0.3748622287011063,0.28757224528491665,0.0457288765088208
|
| 8 |
+
N136_TOL,TOL,0.977290357056914,1.1914725878625758,1.07510026490389,1.2250516852235995,0.6819499341238473,0.020089097755394515,0.11210294974333246,0.48616600790513836,0.022143058002233058,0.02309392271755858,0.10013175230566534,0.4145564013656361,0.46795949358572325,0.19104084321475626,0.04055592448763256,0.05599855662289359,0.0922266139657444,0.0028768265815699978,1.289620959919529e-06,0.0013175230566534915,0.49977869180753376,0.3408437877095322,0.12911725955204217
|
| 9 |
+
N136_FU1,FU1,0.8648682776438918,1.1153254108125314,0.9891635855199601,1.1599106246551865,0.4604723835554037,0.014880380215231208,0.13275961865676292,0.4246668944311582,0.04060073253863251,0.03659545814414364,0.14724974376494704,0.4627075098571595,0.5092335535196552,0.19337205329689103,0.05409225973532666,0.06783756510738626,0.09531943969935087,0.003804261385868037,8.243261328506023e-07,0.0023915271609156134,0.423914856267782,0.25357298024591907,0.13700034164673727
|
| 10 |
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paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/cv_pooled_full/summary.json
ADDED
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| 1 |
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{
|
| 2 |
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"dataset": "ji2025_chili",
|
| 3 |
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"comparison": "cv",
|
| 4 |
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"draw": null,
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| 5 |
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"gene_mode": "full",
|
| 6 |
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"stored_scores": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ji2025_chili/pooled",
|
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"lora_arm": "real_lora__raw",
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"n_donors": 33,
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"contrast": true,
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