Package: RTNsurvival
Type: Package
Title: Survival analysis using transcriptional networks inferred by the
        RTN package
Version: 1.34.0
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(>= 2.29.1), RTNduals(>= 1.29.1), methods
Imports: survival, RColorBrewer, grDevices, graphics, stats, utils,
        scales, data.table, egg, ggplot2, pheatmap, dunn.test
Suggests: knitr, rmarkdown, BiocStyle, RUnit, BiocGenerics
Description: RTNsurvival is a tool for integrating regulons generated
        by the RTN package with survival information. For a given
        regulon, the 2-tailed GSEA approach computes a differential
        Enrichment Score (dES) for each individual sample, and the dES
        distribution of all samples is then used to assess the survival
        statistics for the cohort. There are two main survival analysis
        workflows: a Cox Proportional Hazards approach used to model
        regulons as predictors of survival time, and a Kaplan-Meier
        analysis assessing the stratification of a cohort based on the
        regulon activity. All plots can be fine-tuned to the user's
        specifications.
License: Artistic-2.0
biocViews: NetworkEnrichment, Survival, GeneRegulation,
        GeneSetEnrichment, NetworkInference, GraphAndNetwork
LazyData: TRUE
VignetteBuilder: knitr
Encoding: UTF-8
RoxygenNote: 7.3.2
Config/pak/sysreqs: cmake libglpk-dev make default-jdk libicu-dev
        libxml2-dev libssl-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:39:06 UTC
RemoteUrl: https://github.com/bioc/RTNsurvival
RemoteRef: RELEASE_3_22
RemoteSha: 3cf0aa1f2bd6da725bd02a202853a92cf1d902a5
NeedsCompilation: no
Packaged: 2025-11-11 17:09:26 UTC; root
Built: R 4.5.2; ; 2025-11-11 17:15:35 UTC; windows
