DESCRIPTION

Package: GSEABenchmarkeR
Type: Package
Title: Reproducible GSEA Benchmarking
Version: 1.27.0
Author:
    Ludwig Geistlinger [aut, cre],
    Gergely Csaba [aut],
    Mara Santarelli [ctb],
    Lucas Schiffer [ctb],
    Marcel Ramos [ctb],
    Ralf Zimmer [aut],
    Levi Waldron [aut]
Maintainer: Ludwig Geistlinger <ludwig.geistlinger@gmail.com>
Description:
    The GSEABenchmarkeR package implements an extendable framework for
    reproducible evaluation of set- and network-based methods for enrichment
    analysis of gene expression data. This includes support for the efficient
    execution of these methods on comprehensive real data compendia (microarray
    and RNA-seq) using parallel computation on standard workstations and
    institutional computer grids. Methods can then be assessed with respect to
    runtime, statistical significance, and relevance of the results for the
    phenotypes investigated.
URL: https://github.com/waldronlab/GSEABenchmarkeR
BugReports: https://github.com/waldronlab/GSEABenchmarkeR/issues
License: Artistic-2.0
Encoding: UTF-8
LazyData: true
Depends:
    Biobase,
    SummarizedExperiment
Imports:
    AnnotationDbi, 
    AnnotationHub,
    BiocFileCache,
    BiocParallel,
    edgeR,
    EnrichmentBrowser,
    ExperimentHub,
    grDevices,
    graphics,
    KEGGandMetacoreDzPathwaysGEO,
    KEGGdzPathwaysGEO,
    methods,
    S4Vectors,
    stats,
    utils
Suggests:
    BiocStyle,
    GSE62944,
    knitr,
    rappdirs,
    rmarkdown
biocViews: ImmunoOncology, 
    Microarray,
    RNASeq,
    GeneExpression,
    DifferentialExpression,
    Pathways,
    GraphAndNetwork,
    Network,
    GeneSetEnrichment,
    NetworkEnrichment,
    Visualization,
    ReportWriting
VignetteBuilder: knitr
RoxygenNote: 7.1.0