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_draw0/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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+covered,NK cell,pseudobulk_log1p_cpm,3037,0.09403831449789922,0.1124457654229603,-0.06178932444539974,0.9696971344883143

paper-releases/pbisc-diffusion/updates/20261008T022410Z-deconv-scsemi-deck/diffusion/dataset/server_1/model8/plans/bayesprism_paired_20261006/results/ji2025_chili/fewshot_draw0/per_donor.csv

@@ -0,0 +1,26 @@
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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_draw0/summary.json

@@ -0,0 +1,147 @@
+{
+ "dataset": "ji2025_chili",
+ "comparison": "fewshot",
+ "draw": 0,
+ "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/draw0",
+ "lora_arm": "lora5",
+ "n_donors": 25,
+ "contrast": true,
+ "genes_scoring": 5752,
+ "genes_covered_by_Z_all_donors": 5686,
+ "bayesprism": {
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+   },
+   "first_mrna": {
+    "T cell": 0.0363,
+    "B cell": 0.024,
+    "Monocyte": 0.5862,
+    "NK cell": 0.1843,
+    "DC": 0.0072,
+    "Other": 0.1621
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+  },
+  "logfc_r_mean_cp10k": 0.2100217096465254,
+  "partial_r_mean_cp10k": 0.05705121990314871,
+  "logfc_r_mean_cp10k_covered_genes": 0.21476502864578612,
+  "deg_top50_sum": 0,
+  "deg_top50_sum_covered_genes": 0,
+  "per_type_logfc_r": {
+   "T cell": 0.2398,
+   "B cell": 0.1065,
+   "Monocyte": 0.37,
+   "NK cell": 0.1238
+  }
+ },
+ "observed_mean_fraction": {
+  "T cell": 0.4958,
+  "B cell": 0.0508,
+  "Monocyte": 0.2433,
+  "NK cell": 0.1669,
+  "DC": 0.0128,
+  "Other": 0.0303
+ },
+ "lora": {
+  "comp_l1": 0.46942970758493824,
+  "coverage": 0.6992,
+  "logfc_r_mean_cp10k": 0.38697985726899736,
+  "deg_top50_sum": 0,
+  "partial_r_mean_cp10k": 0.36588903106531123
+ },
+ "broadcast": {
+  "logfc_r_mean_cp10k": 0.21311861411338662,
+  "logfc_r_mean_cp10k_covered_genes": 0.20115944437037211,
+  "deg_top50_sum": 0
+ },
+ "other_arms": {
+  "zs_raw": {
+   "comp_l1": 0.7400644990694674,
+   "logfc_r_mean_cp10k": 0.10251919469370015,
+   "deg_top50_sum": 0
+  },
+  "zs_pseudo": {
+   "comp_l1": 0.16717128996574535,
+   "logfc_r_mean_cp10k": 0.1840352599240339,
+   "deg_top50_sum": 0
+  },
+  "zs_cal": {
+   "comp_l1": 0.5151446979886816,
+   "logfc_r_mean_cp10k": 0.11356580338558689,
+   "deg_top50_sum": 0
+  }
+ },
+ "gates": {
+  "observed_composition_equal": true,
+  "broadcast_r_equal": true,
+  "broadcast_deg_equal": true
+ },
+ "n_case": 14,
+ "n_control": 11,
+ "deg_per_type": {
+  "zero_filled": {
+   "bp": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 0,
+    "NK cell": 0,
+    "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": 0,
+    "NK cell": 0,
+    "DC": 0
+   },
+   "broadcast": {
+    "T cell": 0,
+    "B cell": 0,
+    "Monocyte": 0,
+    "NK cell": 0,
+    "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_draw0_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,3038,,0.21197028589936057,,
+zero_filled,T cell,pseudobulk_log1p_cpm,3038,,0.3111080127833571,,
+zero_filled,B cell,mean_cp10k,3233,,0.10073938447302222,,
+zero_filled,B cell,pseudobulk_log1p_cpm,3233,,0.012072638770403557,,
+zero_filled,Monocyte,mean_cp10k,3193,0.18216746572132886,0.3732268158395985,0.008337046485416296,0.4697935017228284
+zero_filled,Monocyte,pseudobulk_log1p_cpm,3193,0.14794398894578972,0.3506580485024196,0.010782265378838219,0.39545495704666156
+zero_filled,NK cell,mean_cp10k,3059,,0.1665379702415652,,
+zero_filled,NK cell,pseudobulk_log1p_cpm,3059,,0.15048321474174686,,
+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,1384,0.27486610240217746,0.3978393598014329,-0.019921172342008103,0.7226515789996473
+covered,Monocyte,pseudobulk_log1p_cpm,1384,0.25126264950283905,0.3317124736728882,0.026614601796959087,0.7036922842752565
+covered,NK cell,mean_cp10k,0,,,,
+covered,NK cell,pseudobulk_log1p_cpm,0,,,,