Package: rnaSentry
Type: Package
Title: Guarded and Auditable Discovery of Prognostic RNA-Seq Signatures
Version: 0.99.19
Authors@R: person("Abdelkarim Hani", "Ghrieb",
    email = "ghriebabdelkarimhani@gmail.com",
    role = c("aut", "cre"))
Description: Orchestrates the statistical pipeline underlying prognostic
    biomarker discovery from bulk RNA-seq SummarizedExperiment objects:
    sample-identity and quality-control auditing, confounder and
    design-formula detection prior to differential expression, signature
    construction with explicit cross-validation stability reporting,
    survival modeling (Kaplan-Meier, log-rank, Cox proportional hazards),
    and external validation against public cohorts. Every automated
    statistical decision is reported with its supporting statistic and a
    plain-language rationale, and validation stages are gated rather than
    silently degraded when guardrail criteria are not met. The package
    records all guardrail decisions, flag ledgers, and validation results
    in a structured audit trail that can be rendered into a standalone HTML
    report.
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.3.3
Depends: R (>= 4.5.0)
Imports: S4Vectors, SummarizedExperiment, survival, withr, methods
Suggests: Biobase, BiocParallel, BiocStyle, GEOquery, ggplot2, knitr,
        rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
biocViews: Software, GeneExpression, RNASeq, DifferentialExpression,
        Survival, QualityControl, BatchEffect, Normalization
URL: https://ghrieb.github.io/rnaSentry/,
        https://github.com/Ghrieb/rnaSentry
BugReports: https://github.com/Ghrieb/rnaSentry/issues
git_url: https://git.bioconductor.org/packages/rnaSentry
git_branch: devel
git_last_commit: d445c42
git_last_commit_date: 2026-10-01
Repository: Bioconductor 3.24
Date/Publication: 2026-10-02
NeedsCompilation: no
Packaged: 2026-10-02 23:52:08 UTC; biocbuild
Author: Abdelkarim Hani Ghrieb [aut, cre]
Maintainer: Abdelkarim Hani Ghrieb <ghriebabdelkarimhani@gmail.com>
