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
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-10-01 13:05:47 UTC
RemoteUrl: https://github.com/bioc/rnaSentry
RemoteRef: HEAD
RemoteSha: d445c42b8e8e27d93769b0a7483f6c4ac7135c7b
NeedsCompilation: no
Packaged: 2026-10-02 17:46:24 UTC; root
Author: Abdelkarim Hani Ghrieb [aut, cre]
Maintainer: Abdelkarim Hani Ghrieb <ghriebabdelkarimhani@gmail.com>
Built: R 4.6.1; ; 2026-10-02 17:48:23 UTC; windows
