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_draw4/contrast.csv

@@ -0,0 +1,17 @@
+genes,celltype,statistic,n_genes,r_generated,r_broadcast,partial_r_generated_given_broadcast,r_generated_vs_broadcast
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+zero_filled,Monocyte,mean_cp10k,3154,0.3806482174115163,0.3600824414237215,0.13891620343268746,0.9009115351084507
+zero_filled,Monocyte,pseudobulk_log1p_cpm,3154,0.3516787618695342,0.34831134154512483,0.061866207613518,0.9676825775622578
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+zero_filled,NK cell,pseudobulk_log1p_cpm,3068,0.04330181580414427,0.07191205216182345,-0.07214815800193605,0.9409440091208693
+covered,T cell,mean_cp10k,3029,0.2536579011909937,0.2064893629604702,0.1511118606187332,0.7833737775480631
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+covered,B cell,pseudobulk_log1p_cpm,3253,0.04354514055329003,0.028060108699590636,0.04162897483716366,0.8973331272083109
+covered,Monocyte,mean_cp10k,3132,0.38486695789637787,0.3594044776747559,0.14776885733363157,0.9408868428890849
+covered,Monocyte,pseudobulk_log1p_cpm,3132,0.3527683744401894,0.3474950120654824,0.06626548477196104,0.9772569101770775
+covered,NK cell,mean_cp10k,3046,0.140932730577534,0.16380455833609095,-0.010545500771004223,0.8894027454768566
+covered,NK cell,pseudobulk_log1p_cpm,3046,0.043981136112839776,0.05904123867367171,-0.04398910505339825,0.9580597692763428

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw4/per_donor.csv

@@ -0,0 +1,25 @@
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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_draw4/summary.json

@@ -0,0 +1,147 @@
+{
+ "dataset": "ji2025_chili",
+ "comparison": "fewshot",
+ "draw": 4,
+ "gene_mode": "score",
+ "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/draw4",
+ "lora_arm": "lora5",
+ "n_donors": 24,
+ "contrast": true,
+ "genes_scoring": 5752,
+ "genes_covered_by_Z_all_donors": 5683,
+ "bayesprism": {
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+  "comp_l1_by_variant": {
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+  },
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+  "partial_r_mean_cp10k": 0.05907257486255502,
+  "logfc_r_mean_cp10k_covered_genes": 0.22009966491136165,
+  "deg_top50_sum": 4,
+  "deg_top50_sum_covered_genes": 4,
+  "per_type_logfc_r": {
+   "T cell": 0.2503,
+   "B cell": 0.1007,
+   "Monocyte": 0.3806,
+   "NK cell": 0.1337
+  }
+ },
+ "observed_mean_fraction": {
+  "T cell": 0.4467,
+  "B cell": 0.0577,
+  "Monocyte": 0.2738,
+  "NK cell": 0.1703,
+  "DC": 0.0137,
+  "Other": 0.0378
+ },
+ "lora": {
+  "comp_l1": 0.6754540168870949,
+  "coverage": 0.6936111111111111,
+  "logfc_r_mean_cp10k": 0.2725492074488929,
+  "deg_top50_sum": 0,
+  "partial_r_mean_cp10k": 0.2467295164617603
+ },
+ "broadcast": {
+  "logfc_r_mean_cp10k": 0.2254541110690231,
+  "logfc_r_mean_cp10k_covered_genes": 0.20941395571219967,
+  "deg_top50_sum": 0
+ },
+ "other_arms": {
+  "zs_raw": {
+   "comp_l1": 0.7317503238566069,
+   "logfc_r_mean_cp10k": 0.05018496145172948,
+   "deg_top50_sum": 0
+  },
+  "zs_pseudo": {
+   "comp_l1": 0.19051591849007043,
+   "logfc_r_mean_cp10k": 0.21609467450510275,
+   "deg_top50_sum": 4
+  },
+  "zs_cal": {
+   "comp_l1": 0.5272117580098429,
+   "logfc_r_mean_cp10k": 0.07003406425395778,
+   "deg_top50_sum": 0
+  }
+ },
+ "gates": {
+  "observed_composition_equal": true,
+  "broadcast_r_equal": true,
+  "broadcast_deg_equal": true
+ },
+ "n_case": 14,
+ "n_control": 10,
+ "deg_per_type": {
+  "zero_filled": {
+   "bp": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 2,
+    "NK cell": 2,
+    "DC": 0
+   },
+   "broadcast": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 0,
+    "NK cell": 0,
+    "DC": 0
+   }
+  },
+  "covered": {
+   "bp": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 2,
+    "NK cell": 2,
+    "DC": 0
+   },
+   "broadcast": {
+    "T cell": 3,
+    "B cell": 0,
+    "Monocyte": 2,
+    "NK cell": 2,
+    "DC": 0
+   }
+  }
+ },
+ "tool_sha256": "15ed044bbfc39c501c7187ad78586902f2aa0635e7b3a90786b4587cedc2008a",
+ "score_ft_sha256": "ec5f40b4cea6d5062d0138f3b934abb6465e34cbfeac869c8a0906924c033aec",
+ "seconds": 0.8
+}

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw4_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,3051,0.11898031098909233,0.22058892790303236,0.09416397566187194,0.12635260684689095
+zero_filled,T cell,pseudobulk_log1p_cpm,3051,0.14778924684130917,0.22354974300191646,0.10949082165723699,0.1926580462454451
+zero_filled,B cell,mean_cp10k,3274,,0.1250583519693801,,
+zero_filled,B cell,pseudobulk_log1p_cpm,3274,,0.03179791067265472,,
+zero_filled,Monocyte,mean_cp10k,3154,0.26155197948386294,0.3600824414237215,0.04111599063996129,0.6449582798528378
+zero_filled,Monocyte,pseudobulk_log1p_cpm,3154,0.20161807639910231,0.34831134154512483,0.016552518742474105,0.5413911895134538
+zero_filled,NK cell,mean_cp10k,3068,,0.19608672297995844,,
+zero_filled,NK cell,pseudobulk_log1p_cpm,3068,,0.07191205216182345,,
+covered,T cell,mean_cp10k,209,0.3130977812391103,0.3324603653119089,0.037193278017188754,0.8946140279932628
+covered,T cell,pseudobulk_log1p_cpm,209,0.49258435807494416,0.4967104371949798,0.11958988578110753,0.9010726798957748
+covered,B cell,mean_cp10k,0,,,,
+covered,B cell,pseudobulk_log1p_cpm,0,,,,
+covered,Monocyte,mean_cp10k,1704,0.35304876883805,0.41195257714489314,-0.02333468442198022,0.881394768250468
+covered,Monocyte,pseudobulk_log1p_cpm,1704,0.3107136570929054,0.3763646214430024,-0.01468995796728161,0.844908587401353
+covered,NK cell,mean_cp10k,0,,,,
+covered,NK cell,pseudobulk_log1p_cpm,0,,,,