Package: SigCheck
Type: Package
Title: Check a gene signature's prognostic performance against random
        signatures, known signatures, and permuted data/metadata
Version: 2.45.0
Author: Rory Stark <bioconductor@starkhome.com> and Justin Norden
Maintainer: Rory Stark <bioconductor@starkhome.com>
Description: While gene signatures are frequently used to predict
        phenotypes (e.g. predict prognosis of cancer patients), it it
        not always clear how optimal or meaningful they are (cf David
        Venet, Jacques E. Dumont, and Vincent Detours' paper "Most
        Random Gene Expression Signatures Are Significantly Associated
        with Breast Cancer Outcome"). Based on suggestions in that
        paper, SigCheck accepts a data set (as an ExpressionSet) and a
        gene signature, and compares its performance on survival and/or
        classification tasks against a) random gene signatures of the
        same length; b) known, related and unrelated gene signatures;
        and c) permuted data and/or metadata.
License: Artistic-2.0
LazyLoad: yes
Depends: R (>= 4.0.0), MLInterfaces, Biobase, e1071, BiocParallel,
        survival
Imports: graphics, stats, utils, methods
Suggests: BiocStyle, breastCancerNKI, qusage
biocViews: GeneExpression, Classification, GeneSetEnrichment
Config/pak/sysreqs: cmake libglpk-dev make libpng-dev libuv1-dev
        libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:40:00 UTC
RemoteUrl: https://github.com/bioc/SigCheck
RemoteRef: HEAD
RemoteSha: 0a235570236b75015684ac407024a05ab2686430
NeedsCompilation: no
Packaged: 2026-07-16 05:04:23 UTC; root