Package: RTNsurvival
Type: Package
Title: Survival analysis using transcriptional networks inferred by the
        RTN package
Version: 1.36.0
Author: Clarice S. Groeneveld, Vinicius S. Chagas, Mauro A. A. Castro
Maintainer: Clarice Groeneveld <clari.groeneveld@gmail.com>, Mauro A. A. Castro <mauro.a.castro@gmail.com>
Depends: R(>= 4.4.0), RTN(>= 2.32), RTNduals(>= 1.32), methods
Imports: survival, RColorBrewer, grDevices, graphics, stats, utils,
        scales, data.table, egg, ggplot2, pheatmap, dunn.test
Suggests: knitr, rmarkdown, BiocStyle, RUnit, BiocGenerics
Description: RTNsurvival integrates regulons inferred by the RTN package with survival data. For each regulon, a two-tailed GSEA framework computes a differential Enrichment Score (dES) at the individual-sample level. The resulting dES distribution across samples is then used to evaluate survival associations within the cohort. Two primary workflows are supported: (i) Cox proportional hazards models, in which regulon activities are treated as predictors of survival time, and (ii) Kaplan–Meier analyses assessing cohort stratification based on regulon activity. All graphical outputs are customizable according to user specifications.
License: Artistic-2.0
biocViews: NetworkEnrichment, Survival, GeneRegulation,
        GeneSetEnrichment, NetworkInference, GraphAndNetwork
LazyData: TRUE
VignetteBuilder: knitr
Encoding: UTF-8
RoxygenNote: 7.3.2
git_url: https://git.bioconductor.org/packages/RTNsurvival
git_branch: RELEASE_3_23
git_last_commit: cf20191
git_last_commit_date: 2026-04-28
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28
NeedsCompilation: no
Packaged: 2026-04-29 00:21:02 UTC; biocbuild
