DESCRIPTION

Package: BioQC
Type: Package
Title: Detect tissue heterogeneity in expression profiles with gene sets
Version: 1.23.1
Date: 2022-01-26
Authors@R: c(
    person("Jitao David", "Zhang", email="jitao_david.zhang@roche.com", role = c("cre", "aut")), 
    person("Laura", "Badi", role="aut"),
    person("Gregor", "Sturm", email="mail@gregor-sturm.de", role=c("aut")),
    person("Roland", "Ambs", role="aut"),
    person("Iakov", "Davydov", role="aut"))
Description: BioQC performs quality control of high-throughput expression data
    based on tissue gene signatures. It can detect tissue heterogeneity in gene
    expression data. The core algorithm is a Wilcoxon-Mann-Whitney test that is
    optimised for high performance.
biocViews: GeneExpression,QualityControl,StatisticalMethod, GeneSetEnrichment
Depends:
    R (>= 3.5.0),
    Biobase
Imports:
    edgeR,
    Rcpp,
    methods,
    stats,
    utils
Collate:
    AllClasses.R
    AllMethods.R
    as.GmtList.R
    GmtList-funcs.R
    readSignedGmt.R
    uniqGenesetsByNamespace.R
    appendGmtList.R
    utils.R
    entropy.R
    gini.R
    readGmt.R
    matchGenes.R
    wmwTest.R
    readCurrentSignatures.R
    prettySigNames.R
    leadingEdge.R
Suggests:
    testthat,
    knitr,
    rmarkdown,
    lattice,
    latticeExtra,
    rbenchmark,
    gplots,
    gridExtra,
    org.Hs.eg.db,
    hgu133plus2.db,
    ggplot2,
    reshape2,
    plyr,
    ineq,
    covr,
    limma,
    RColorBrewer
LinkingTo: Rcpp
VignetteBuilder: knitr
License: GPL (>=3) + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.1.2
URL: https://accio.github.io/BioQC
BugReports: https://github.com/Accio/BioQC/issues