Datasets:

junidude14
/

PBISC-data

paper-releases/pbisc-diffusion/updates/20261013T034842Z-expanded-131-slide-master/diffusion/dataset/server_1/model8/presentations/2026-09-30--paper-summary--r00/data/expanded_master_20261013/healthy/gene_length_stable.provenance.json ADDED Viewed

	@@ -0,0 +1,31 @@

+{
+  "key": "gene_length_stable",
+  "source_records": [
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/MANIFEST.json",
+      "sha256": "45e6836942e894e51cfba5e4f9925a0d8affa9bbe95f1adebaf87af2830adf1b",
+      "role": "historical input/control provenance"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/RESULTS.md",
+      "sha256": "83ec5eec39f15ccb7615da81c4b8f6345563b3a224934f3f942d29bf87b9054c",
+      "role": "historical scope and limitations"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/tables/g_gene_shift_vs_length.csv",
+      "sha256": "832985e744403426022aa0af81c730a622aaf7eae160fb50ad43de3021b3fddc",
+      "role": "saved analysis input"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/umap/cell_immicro_5arm/tables/g_length_stats.csv",
+      "sha256": "612298d51b6d0604c19536b087acc0ee22150c0297ac6afeb1d6b9db6806af8a",
+      "role": "saved analysis input"
+    }
+  ],
+  "new_training": false,
+  "new_inference": false,
+  "new_embedding": false,
+  "new_statistical_scoring": false,
+  "display_transform_notes": "Only log10 axis conversion and plotting of saved per-gene shifts. The displayed Spearman values come directly from g_length_stats.csv; no correlation or regression is recomputed. Label-stable means the frozen broad label agrees between generated twins; it does not establish identical biological state. Y values are generated log1p CP10K differences.",
+  "palette": "native"
+}

	@@ -0,0 +1,4 @@

+replicate,n,donor_r_median,donor_r_mean,top1_retrieval,n_top1,own_rank_median,median_r_to_other_donors,cohort_mean_r_median,database
+remeasure,16,0.9743289933481628,0.974626966046753,0.4375,7,14.0,0.9642631464340039,0.9751845379722308,
+followup_visit,16,0.9688221609436457,0.9683435225610766,0.25,4,22.0,0.9606386460328113,0.9713950183782779,
+capture_halves,107,0.9912428114676277,0.9884045172977411,0.8411214953271028,90,1.0,0.9742828374549648,0.9875315013429896,capture half B of all 107 donors (not the full baseline)

	@@ -0,0 +1,26 @@

+{
+  "key": "immicro_replicate_controls",
+  "source_records": [
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/out/build_manifest.json",
+      "sha256": "90c9f650705cf0beb1e33f41d6cfad12ecb99d183c17090f206f9e8b245ef785",
+      "role": "observed-cell analysis provenance"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/out/observed_summary.json",
+      "sha256": "c3f113fd18f54113cc011886490b1664b1e40a8f35bc89f5ba007fb49ce4ae50",
+      "role": "saved analysis metadata"
+    },
+    {
+      "path": "/home/sj_server_1/PBISC/immun-pbmc-fm/model_8_sparse_data_diffusion/plans/utility_studies_final6k_20260925/immicro/out/replicate_pseudobulk_per_donor.csv",
+      "sha256": "6d3c522e6587a242dc50677e697480802ed21a6bfc4cabadd98a4cc49870a2d7",
+      "role": "existing donor replicate records"
+    }
+  ],
+  "new_training": false,
+  "new_inference": false,
+  "new_embedding": false,
+  "new_statistical_scoring": false,
+  "display_transform_notes": "Previously processed ImMicro observations. Technical remeasurement and follow-up have 16 donors; capture-half control has its own recorded sample count. Follow-up is biological longitudinal variation, not a technical replicate. Correlation and top-1 retrieval are saved aggregates; no new subsampling, correlation or retrieval analysis. Use the recorded follow-up gene-support rule in observed_summary.json.",
+  "palette": "preserved"
+}

	@@ -0,0 +1,7 @@

+label,R1,R2,raw,tpm,refcal,cal,pseudo,raw_all1500,tpm_all1500,refcal_all1500,cal_all1500,pseudo_all1500
+T cell,0.6413084112149533,0.6380685358255451,0.4289719626168224,0.4482242990654205,0.6012461059190031,0.6897819314641744,0.7046728971962617,0.4318816199376947,0.450404984423676,0.5976760124610592,0.6918130841121495,0.7033333333333334
+B cell,0.0735202492211838,0.0732710280373831,0.1151401869158878,0.0775077881619937,0.0900934579439252,0.0867912772585669,0.0499065420560747,0.1140436137071651,0.0761246105919003,0.0914704049844236,0.0852772585669782,0.0506230529595015
+Monocyte,0.1636760124610592,0.1673520249221183,0.3055451713395639,0.3429906542056075,0.1767601246105919,0.1369470404984423,0.1433021806853582,0.3039750778816199,0.3406915887850467,0.1752647975077881,0.1367788161993769,0.1419376947040498
+NK cell,0.0919003115264797,0.0913395638629283,0.0905295950155763,0.0716510903426791,0.1023676012461059,0.0547040498442367,0.0705919003115264,0.0918878504672897,0.0730529595015576,0.1073769470404984,0.0563551401869158,0.0732897196261682
+DC,0.023613707165109,0.0247975077881619,0.025233644859813,0.024423676012461,0.019626168224299,0.015202492211838,0.0148909657320872,0.0261308411214953,0.0245358255451713,0.0185420560747663,0.014404984423676,0.0157570093457943
+Other,0.0059813084112149,0.0051713395638629,0.0345794392523364,0.035202492211838,0.0099065420560747,0.0165732087227414,0.0166355140186915,0.0320809968847352,0.0351900311526479,0.0096697819314641,0.0153707165109034,0.0150591900311526