https://jibeomko.r-universe.devRecent package updates in jibeomkoR-universehttps://github.com/jibeomko.pnghttps://jibeomko.r-universe.devMon, 28 Sep 2026 13:10:57 GMTrhwlqja1779@gmail.com (Jibeom Ko)pdactrace implements a transparent, deterministic claim-audit framework for stage-aware pancreatic ductal adenocarcinoma (PDAC) tissue-to-blood biomarker evidence. It integrates per-stage trajectory matching across bulk RNA-seq, tissue proteomics, single-cell origin, serum proteomics, and pancreatitis context, with explicit anchor-enrichment evaluation against a curated external reference set. The framework comprises a 12-template competitive trajectory catalog, a 3-axis + 2-gate reference score, an Evidence Math layer, TRACE-D tissue-to-serum directional evidence concordance, claim-tier classification, and weight-robustness and Pareto support audits. A prespecification layer supports freezing candidate scores, directions and a decision rule under a content hash before outcome labels are opened, with a distinct inconclusive terminal state when a frozen gate fails. Scope is deliberately PDAC-specific: the bundled atlas, the anchor reference set and every validated claim are PDAC, and no result is claimed for any other disease. Separately, no supervised classifier is trained or shipped, because validated non-circular early-detection ground truth is unavailable in PDAC.https://github.com/r-universe/biocstaging/actions/runs/36445637536Mon, 28 Sep 2026 13:10:57 GMTpdactrace0.99.25successhttps://biocstaging.r-universe.devhttps://github.com/BiocStaging/pdactracelookup_basics.Rmdlookup_basics.htmlLookup basics: querying the pdactrace atlas 2026-05-07 09:56:212026-05-27 11:13:21audit_case_studies.Rmdaudit_case_studies.htmlAudit-class case studies — LGALS3BP / LTBP1 / ALB / GAPDH 2026-05-07 09:56:212026-09-27 11:14:08audit_framework.Rmdaudit_framework.htmlAudit framework: 3 axes + 2 gates + 4 classes (v0.3.0) 2026-05-07 09:56:212026-09-28 11:34:07user_cohort_extension.Rmduser_cohort_extension.htmlApply pdactrace to your own multi-omics cohort 2026-05-07 09:56:212026-09-27 11:14:08reproducibility.Rmdreproducibility.htmlReproducibility from raw data 2026-05-08 02:12:262026-09-27 12:13:37methodology_validation.Rmdmethodology_validation.htmlMethodology validation: cutoff sensitivity + tool comparison 2026-05-10 09:05:442026-09-28 12:54:38prespecification_audit.Rmdprespecification_audit.htmlPrespecified scoring and the frozen one-shot audit 2026-09-27 11:14:082026-09-28 11:34:07cross_cancer_demonstration.Rmdcross_cancer_demonstration.htmlPortability of the R API to a non-PDAC cohort 2026-05-10 09:05:442026-09-27 11:14:08