Archive 4 checkpoints (1-4)

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw1_cibersortx/contrast.csv

@@ -0,0 +1,17 @@
+genes,celltype,statistic,n_genes,r_generated,r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast
+zero_filled,T cell,mean_cp10k,3013,,0.17723815953863759,,
+zero_filled,T cell,pseudobulk_log1p_cpm,3013,,0.2548071458258705,,
+zero_filled,B cell,mean_cp10k,3263,,0.09853768043196273,,
+zero_filled,B cell,pseudobulk_log1p_cpm,3263,,0.035183033974984575,,
+zero_filled,Monocyte,mean_cp10k,3157,0.184263445890968,0.3948466424201932,-0.03565872615503221,0.5366817153816426
+zero_filled,Monocyte,pseudobulk_log1p_cpm,3157,0.14058912887223726,0.3639773066663638,-0.010497963957126712,0.410751134675061
+zero_filled,NK cell,mean_cp10k,3047,,0.16105690782451637,,
+zero_filled,NK cell,pseudobulk_log1p_cpm,3047,,0.1345214411691737,,
+covered,T cell,mean_cp10k,0,,,,
+covered,T cell,pseudobulk_log1p_cpm,0,,,,
+covered,B cell,mean_cp10k,0,,,,
+covered,B cell,pseudobulk_log1p_cpm,0,,,,
+covered,Monocyte,mean_cp10k,1701,0.28007914659300925,0.3095667783932255,0.0682211026756434,0.771397055613926
+covered,Monocyte,pseudobulk_log1p_cpm,1701,0.24264564189938456,0.30225921760703706,0.03744760667397886,0.7209310490772866
+covered,NK cell,mean_cp10k,0,,,,
+covered,NK cell,pseudobulk_log1p_cpm,0,,,,

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw1_cibersortx/per_donor.csv

@@ -0,0 +1,27 @@
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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/fewshot_draw1_cibersortx/summary.json

@@ -0,0 +1,157 @@
+{
+ "dataset": "ji2025_chili",
+ "comparison": "fewshot",
+ "draw": 1,
+ "gene_mode": "cibersortx",
+ "stored_scores": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/paired_finetune_intradataset_20260927/scores/ji2025_chili/fewshot_n5/draw1",
+ "lora_arm": "lora5",
+ "n_donors": 26,
+ "contrast": true,
+ "genes_scoring": 5752,
+ "genes_covered_by_Z_all_donors": 2985,
+ "bayesprism": {
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+  "comp_l1_by_variant": {
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+  "deg_top50_sum_covered_genes": 0,
+  "per_type_logfc_r": {
+   "T cell": NaN,
+   "B cell": NaN,
+   "Monocyte": 0.1843,
+   "NK cell": NaN
+  }
+ },
+ "observed_mean_fraction": {
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+  "B cell": 0.0535,
+  "Monocyte": 0.2773,
+  "NK cell": 0.1642,
+  "DC": 0.0141,
+  "Other": 0.0271
+ },
+ "lora": {
+  "comp_l1": 0.3891842501829222,
+  "coverage": 0.8551282051282051,
+  "logfc_r_mean_cp10k": 0.27568480061697936,
+  "deg_top50_sum": 1,
+  "partial_r_mean_cp10k": 0.2420147625491504
+ },
+ "broadcast": {
+  "logfc_r_mean_cp10k": 0.20791984755382747,
+  "logfc_r_mean_cp10k_covered_genes": 0.3095667783932255,
+  "deg_top50_sum": 0
+ },
+ "other_arms": {
+  "zs_raw": {
+   "comp_l1": 0.7126098061913061,
+   "logfc_r_mean_cp10k": 0.03695897416331737,
+   "deg_top50_sum": 0
+  },
+  "zs_pseudo": {
+   "comp_l1": 0.1606643878298316,
+   "logfc_r_mean_cp10k": 0.14598862881808508,
+   "deg_top50_sum": 0
+  },
+  "zs_cal": {
+   "comp_l1": 0.5062036715725622,
+   "logfc_r_mean_cp10k": 0.05364414433733922,
+   "deg_top50_sum": 0
+  }
+ },
+ "gates": {
+  "observed_composition_equal": true,
+  "broadcast_r_equal": true,
+  "broadcast_deg_equal": true
+ },
+ "method": "cibersortx",
+ "has_cell_type_expression": true,
+ "n_case": 15,
+ "n_control": 11,
+ "deg_per_type": {
+  "zero_filled": {
+   "bp": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 0,
+    "NK cell": 0,
+    "DC": 0
+   },
+   "broadcast": {
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+    "B cell": 0,
+    "Monocyte": 0,
+    "NK cell": 0,
+    "DC": 0
+   }
+  },
+  "covered": {
+   "bp": {
+    "T cell": null,
+    "B cell": null,
+    "Monocyte": 0,
+    "NK cell": null,
+    "DC": 0
+   },
+   "broadcast": {
+    "T cell": null,
+    "B cell": null,
+    "Monocyte": 0,
+    "NK cell": null,
+    "DC": 0
+   }
+  }
+ },
+ "hires_imputed_genes": {
+  "fewshot1|T cell": 0,
+  "fewshot1|B cell": 0,
+  "fewshot1|Monocyte": 2060,
+  "fewshot1|NK cell": 0,
+  "fewshot1|DC": 1859,
+  "fewshot1|Other": 0
+ },
+ "tool_sha256": "b541f68dc286497e8347d487af58ff3550a383d126eeabe347c0726e4fb28799",
+ "score_ft_sha256": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
+ "seconds": 1.3
+}

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw1_full/contrast.csv

@@ -0,0 +1,17 @@
+genes,celltype,statistic,n_genes,r_generated,r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast
+zero_filled,T cell,mean_cp10k,3013,0.10204575046860538,0.17723815953863759,-0.06670036681807943,0.7986462085610464
+zero_filled,T cell,pseudobulk_log1p_cpm,3013,0.18594095201424085,0.2548071458258705,-0.11607026767506815,0.9111982937308327
+zero_filled,B cell,mean_cp10k,3263,0.032336961937567923,0.09853768043196273,-0.04877900579764293,0.6864092452810959
+zero_filled,B cell,pseudobulk_log1p_cpm,3263,0.015820216581646212,0.035183033974984575,-0.028939001341806797,0.8638066341490956
+zero_filled,Monocyte,mean_cp10k,3157,0.4707003165332712,0.3948466424201932,0.28044209880711485,0.8674356223219999
+zero_filled,Monocyte,pseudobulk_log1p_cpm,3157,0.37958339443073996,0.3639773066663638,0.11676411504869086,0.9461318783458981
+zero_filled,NK cell,mean_cp10k,3047,0.09120846768538272,0.16105690782451637,-0.05802706330183347,0.7860995259046161
+zero_filled,NK cell,pseudobulk_log1p_cpm,3047,0.09902682351218872,0.1345214411691737,-0.060218759824350584,0.9150532291869544
+covered,T cell,mean_cp10k,2827,0.1251289915671598,0.14967340820573397,-0.013089136392237997,0.877483327575679
+covered,T cell,pseudobulk_log1p_cpm,2827,0.21442927399923362,0.2632385124931514,-0.11870601266077527,0.9501819301144238
+covered,B cell,mean_cp10k,3075,0.037732710024162605,0.07358513884893783,-0.02742687073041043,0.7560620357464902
+covered,B cell,pseudobulk_log1p_cpm,3075,0.018837327922002878,0.04044109554509202,-0.04184585688440749,0.9051953364988274
+covered,Monocyte,mean_cp10k,2980,0.4826273783195961,0.41853188291220755,0.275216751198162,0.9222149178597975
+covered,Monocyte,pseudobulk_log1p_cpm,2980,0.38770430042826426,0.3568396666427001,0.19169549648652043,0.9750134888718467
+covered,NK cell,mean_cp10k,2866,0.11782170314247352,0.15037559617259488,-0.022634655045533313,0.8595622488955057
+covered,NK cell,pseudobulk_log1p_cpm,2866,0.11675792682641402,0.13303990281475278,-0.03488587231885784,0.9548370196335788