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/giroux2022/fewshot_draw3_full/summary.json +147 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/contrast.csv +17 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/per_donor.csv +11 -0
- paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/summary.json +147 -0
paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw3_full/summary.json
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| 1 |
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{
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| 2 |
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"dataset": "giroux2022",
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| 3 |
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"comparison": "fewshot",
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| 4 |
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"draw": 3,
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| 5 |
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"gene_mode": "full",
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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_nosex/giroux2022/fewshot_n5/draw3",
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| 7 |
+
"lora_arm": "lora5",
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| 8 |
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"n_donors": 11,
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| 9 |
+
"contrast": true,
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| 10 |
+
"genes_scoring": 5563,
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| 11 |
+
"genes_covered_by_Z_all_donors": 5202,
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| 12 |
+
"bayesprism": {
|
| 13 |
+
"comp_l1": 1.8433952838578165,
|
| 14 |
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"comp_l1_by_variant": {
|
| 15 |
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"final_cells": 1.8433952838578165,
|
| 16 |
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"first_cells": 1.302936224569384,
|
| 17 |
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"final_mrna": 1.709759632389227,
|
| 18 |
+
"first_mrna": 0.9231549241386623
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| 19 |
+
},
|
| 20 |
+
"mean_fraction": {
|
| 21 |
+
"final_cells": {
|
| 22 |
+
"T cell": 0.0,
|
| 23 |
+
"B cell": 0.0029,
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| 24 |
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"Monocyte": 0.0323,
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| 25 |
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"NK cell": 0.0003,
|
| 26 |
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"DC": 0.0,
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| 27 |
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"Other": 0.9644
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| 28 |
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},
|
| 29 |
+
"first_cells": {
|
| 30 |
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"T cell": 0.2555,
|
| 31 |
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"B cell": 0.0035,
|
| 32 |
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"Monocyte": 0.046,
|
| 33 |
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"NK cell": 0.0007,
|
| 34 |
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"DC": 0.0001,
|
| 35 |
+
"Other": 0.6942
|
| 36 |
+
},
|
| 37 |
+
"final_mrna": {
|
| 38 |
+
"T cell": 0.0,
|
| 39 |
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"B cell": 0.0079,
|
| 40 |
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"Monocyte": 0.1099,
|
| 41 |
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"NK cell": 0.0007,
|
| 42 |
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"DC": 0.0,
|
| 43 |
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"Other": 0.8815
|
| 44 |
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},
|
| 45 |
+
"first_mrna": {
|
| 46 |
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"T cell": 0.3747,
|
| 47 |
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"B cell": 0.0072,
|
| 48 |
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"Monocyte": 0.1269,
|
| 49 |
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"NK cell": 0.0012,
|
| 50 |
+
"DC": 0.0007,
|
| 51 |
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"Other": 0.4893
|
| 52 |
+
}
|
| 53 |
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},
|
| 54 |
+
"logfc_r_mean_cp10k": 0.4037329126226964,
|
| 55 |
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"partial_r_mean_cp10k": 0.17056815748180337,
|
| 56 |
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"logfc_r_mean_cp10k_covered_genes": 0.40616851567557477,
|
| 57 |
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"deg_top50_sum": 0,
|
| 58 |
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"deg_top50_sum_covered_genes": 0,
|
| 59 |
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"per_type_logfc_r": {
|
| 60 |
+
"T cell": 0.5101,
|
| 61 |
+
"B cell": 0.3237,
|
| 62 |
+
"Monocyte": 0.6215,
|
| 63 |
+
"NK cell": 0.1596
|
| 64 |
+
}
|
| 65 |
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},
|
| 66 |
+
"observed_mean_fraction": {
|
| 67 |
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"T cell": 0.5812,
|
| 68 |
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"B cell": 0.0909,
|
| 69 |
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"Monocyte": 0.1695,
|
| 70 |
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"NK cell": 0.1012,
|
| 71 |
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"DC": 0.0144,
|
| 72 |
+
"Other": 0.0427
|
| 73 |
+
},
|
| 74 |
+
"lora": {
|
| 75 |
+
"comp_l1": 0.2688359990061283,
|
| 76 |
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"coverage": 0.9624242424242424,
|
| 77 |
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"logfc_r_mean_cp10k": 0.24186295766157903,
|
| 78 |
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"deg_top50_sum": 0,
|
| 79 |
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"partial_r_mean_cp10k": 0.14697551642627654
|
| 80 |
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},
|
| 81 |
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"broadcast": {
|
| 82 |
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"logfc_r_mean_cp10k": 0.4657480400911531,
|
| 83 |
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"logfc_r_mean_cp10k_covered_genes": 0.46502199547649703,
|
| 84 |
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"deg_top50_sum": 0
|
| 85 |
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},
|
| 86 |
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"other_arms": {
|
| 87 |
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"zs_raw": {
|
| 88 |
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"comp_l1": 0.36067702333786233,
|
| 89 |
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"logfc_r_mean_cp10k": 0.20868988692878626,
|
| 90 |
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"deg_top50_sum": 0
|
| 91 |
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},
|
| 92 |
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"zs_pseudo": {
|
| 93 |
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"comp_l1": 0.32656717766683413,
|
| 94 |
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"logfc_r_mean_cp10k": 0.3903722846107435,
|
| 95 |
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"deg_top50_sum": 0
|
| 96 |
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},
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| 97 |
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"zs_cal": {
|
| 98 |
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"comp_l1": 0.3590205642243967,
|
| 99 |
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"logfc_r_mean_cp10k": 0.13512758815407414,
|
| 100 |
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"deg_top50_sum": 0
|
| 101 |
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}
|
| 102 |
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},
|
| 103 |
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"gates": {
|
| 104 |
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"observed_composition_equal": true,
|
| 105 |
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"broadcast_r_equal": true,
|
| 106 |
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"broadcast_deg_equal": true
|
| 107 |
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},
|
| 108 |
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"n_case": 6,
|
| 109 |
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"n_control": 5,
|
| 110 |
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"deg_per_type": {
|
| 111 |
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"zero_filled": {
|
| 112 |
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"bp": {
|
| 113 |
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"T cell": 0,
|
| 114 |
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"B cell": 0,
|
| 115 |
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"Monocyte": 0,
|
| 116 |
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"NK cell": 0,
|
| 117 |
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"DC": 0
|
| 118 |
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},
|
| 119 |
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"broadcast": {
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| 120 |
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"T cell": 0,
|
| 121 |
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"B cell": 0,
|
| 122 |
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"Monocyte": 0,
|
| 123 |
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"NK cell": 0,
|
| 124 |
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"DC": 0
|
| 125 |
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}
|
| 126 |
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},
|
| 127 |
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"covered": {
|
| 128 |
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"bp": {
|
| 129 |
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"T cell": 0,
|
| 130 |
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"B cell": 0,
|
| 131 |
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"Monocyte": 0,
|
| 132 |
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"NK cell": 0,
|
| 133 |
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"DC": 0
|
| 134 |
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},
|
| 135 |
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"broadcast": {
|
| 136 |
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"T cell": 0,
|
| 137 |
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"B cell": 0,
|
| 138 |
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"Monocyte": 0,
|
| 139 |
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"NK cell": 0,
|
| 140 |
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"DC": 0
|
| 141 |
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}
|
| 142 |
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}
|
| 143 |
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},
|
| 144 |
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"tool_sha256": "15ed044bbfc39c501c7187ad78586902f2aa0635e7b3a90786b4587cedc2008a",
|
| 145 |
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"score_ft_sha256": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
|
| 146 |
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"seconds": 1.4
|
| 147 |
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}
|
paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/contrast.csv
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| 1 |
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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,2870,0.530772954628795,0.7344048019011988,-0.08739310635599705,0.7738771432512674
|
| 3 |
+
zero_filled,T cell,pseudobulk_log1p_cpm,2870,0.48693726380824615,0.6900634955326531,-0.20667783243768587,0.8273850680308193
|
| 4 |
+
zero_filled,B cell,mean_cp10k,3061,0.384756227501899,0.565884313340693,0.1259454823442486,0.5235823449226689
|
| 5 |
+
zero_filled,B cell,pseudobulk_log1p_cpm,3061,0.22702593799908125,0.4704332503129004,-0.0024352964724342315,0.4865799239184463
|
| 6 |
+
zero_filled,Monocyte,mean_cp10k,3017,0.7310559202940076,0.5561945453231222,0.587447418104977,0.6398077321223036
|
| 7 |
+
zero_filled,Monocyte,pseudobulk_log1p_cpm,3017,0.6914649685676428,0.6573550923248582,0.40205395366714136,0.7438362262800684
|
| 8 |
+
zero_filled,NK cell,mean_cp10k,2940,0.5300188541964662,0.6558646674649503,0.18509452524823103,0.6453933900483219
|
| 9 |
+
zero_filled,NK cell,pseudobulk_log1p_cpm,2940,0.415940355622725,0.5646910960578172,0.012782478782017905,0.7236875486434821
|
| 10 |
+
covered,T cell,mean_cp10k,2867,0.5326735954853656,0.734299756827941,-0.0881267656873764,0.7767291190885354
|
| 11 |
+
covered,T cell,pseudobulk_log1p_cpm,2867,0.4878847110601905,0.6894321594184367,-0.20565116181768447,0.8286187881920114
|
| 12 |
+
covered,B cell,mean_cp10k,3058,0.38691413239524236,0.56573818762592,0.12638962973883278,0.5273951703024122
|
| 13 |
+
covered,B cell,pseudobulk_log1p_cpm,3058,0.22639246196553842,0.46935781968802703,-0.0026044700313034423,0.4866256704077022
|
| 14 |
+
covered,Monocyte,mean_cp10k,3014,0.731622575255614,0.5574852307025625,0.5870838121280727,0.6422241086910899
|
| 15 |
+
covered,Monocyte,pseudobulk_log1p_cpm,3014,0.6916301783137729,0.6574795951210181,0.4017143419287315,0.7446882760819126
|
| 16 |
+
covered,NK cell,mean_cp10k,2937,0.5334198182053186,0.6556591398606825,0.18830460641347155,0.648490315397459
|
| 17 |
+
covered,NK cell,pseudobulk_log1p_cpm,2937,0.41696877975036967,0.5637407069893806,0.014455620650758347,0.7250605063501693
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paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/per_donor.csv
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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 |
+
450905_d0,mild,0.6339658313816152,0.8331588689402293,0.3865028531448518,0.45240302780740393,0.2785102017810844,0.7260146728874295,0.32857036575415216,0.30943523841731485,7.206166845031533e-06,0.0007261461459596619,0.036185322962461956,0.22478569831128054,0.245422420741758,0.4293202570172472,0.021783901933591348,0.03324928670159905,0.12089956036523504,0.00010343148678499223,6.984236295225198e-07,0.009976327358809604,0.027305089214068615,0.3920310822329017,0.09418329387893135
|
| 3 |
+
450905_d14,mild,0.884659243286934,0.5807059678422232,0.5443738697488427,0.30572614820767235,0.3955047927636019,0.7326373095590216,0.2831791107675964,0.4422843256379101,0.008326014514580517,0.02703130877788239,0.02929661131362225,0.119755753213398,0.10694438063655748,0.27420008100445525,0.06984733764149895,0.07395426851274468,0.15782368030241664,0.0033741625966854606,2.6489354121924547e-06,0.02983664101525584,0.06605942247481544,0.508888282369807,0.06655866072633995
|
| 4 |
+
7085CA_d0,mild,0.604241119028746,0.8805707074744893,0.23182048991466475,0.409198630420589,0.3972030194676201,0.6568924256482497,0.32855830445324896,0.21660707191100517,0.0002118491911498418,0.022650556059289038,0.024791418355184745,0.3096888205330891,0.3745921281091719,0.5874453714739769,0.02552842575471302,0.06254894399335104,0.13198251887167262,0.0021695563243018796,2.6628374669210977e-05,0.017719507350019866,0.005508922548496258,0.21162343901026992,0.021454112038140644
|
| 5 |
+
7085CA_d7,mild,0.8270017311460905,0.6110914839643037,0.6096668407550452,0.43770917433250245,0.2734377299001577,0.8059610937213957,0.3982296229313943,0.521492380451918,0.019258465916406866,0.04141675995726801,0.0722017866526537,0.04961282186738803,0.04503540281557712,0.10110352075669994,0.08743675689002184,0.08899364109569773,0.2725170782974251,0.0038319726714092367,1.8474063134786084e-06,0.019863373620599055,0.03389888893337829,0.4263227257937495,0.012821860220704152
|
| 6 |
+
7085CA_d14,mild,0.9637836022091515,0.7064536385756502,0.6695338422404149,0.5078917867531504,0.379083817055046,0.8246207851527836,0.33583057157704277,0.472533019264743,0.011517775278303081,0.028564229448972522,0.07133843694792631,0.05879327846958967,0.04959807356122292,0.16210986792294102,0.0676972593122483,0.07138930111619991,0.24270211155043325,0.003507022947735009,1.1977524302861428e-06,0.018591738874400604,0.033863878839340326,0.5146166265441314,0.032724825439555814
|
| 7 |
+
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| 8 |
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| 9 |
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| 10 |
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180E1A_d7,severe,0.8846012574841201,0.3335248987585886,0.6552467035475523,0.21093303261971835,0.1035562269851761,0.8929436366352665,0.4746184047705959,0.7348692285903126,0.005570296203188958,0.019936297513178294,0.04909829100179398,0.038657749684546404,0.031011215049557343,0.09064299877254273,0.019331590968088043,3.020548129183669e-05,0.08280615617033331,0.0027059564426274844,5.197113743558947e-07,0.010480596733075253,0.04079077006628242,0.4744033574740022,0.03210272873194221
|
| 11 |
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180E1A_d14,severe,0.8166495522744741,0.39259947809032264,0.6518614406725936,0.2879788703300444,0.1121267151573282,0.8771405990883233,0.4465970228193132,0.680840860043162,0.008626678255486136,0.026836392195902198,0.05147470226200943,0.07073243789666757,0.06316228603397604,0.12277196067460634,0.010687840139508558,6.9521962141895145e-06,0.0800095915594277,0.002979475805175368,1.0335699589974904e-06,0.009831348413396212,0.029832968814839034,0.4633963131846353,0.05507153704739829
|
paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/giroux2022/fewshot_draw4/summary.json
ADDED
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@@ -0,0 +1,147 @@
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|
| 1 |
+
{
|
| 2 |
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"dataset": "giroux2022",
|
| 3 |
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"comparison": "fewshot",
|
| 4 |
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"draw": 4,
|
| 5 |
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"gene_mode": "score",
|
| 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_nosex/giroux2022/fewshot_n5/draw4",
|
| 7 |
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"lora_arm": "lora5",
|
| 8 |
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|
| 9 |
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"contrast": true,
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| 10 |
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| 11 |
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| 12 |
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| 13 |
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| 14 |
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},
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