DESCRIPTION

Package: CNVRanger
Version: 1.23.0
Title: Summarization and expression/phenotype association of CNV ranges
Author: Ludwig Geistlinger [aut, cre], Vinicius Henrique da Silva [aut],
    Marcel Ramos [ctb], Levi Waldron [ctb]
Maintainer: Ludwig Geistlinger <ludwig.geistlinger@gmail.com>
Depends: 
    GenomicRanges,
    RaggedExperiment
Imports: 
    BiocGenerics,
    BiocParallel,
    GDSArray,
    GenomeInfoDb,
    IRanges,
    S4Vectors,
    SNPRelate,
    SummarizedExperiment, 
    data.table, 
    edgeR,
    gdsfmt,
    grDevices,
    lattice,
    limma,
    methods,
    plyr,
    qqman, 
    rappdirs,
    reshape2,
    stats,
    utils
Suggests:
    AnnotationHub,
    BSgenome.Btaurus.UCSC.bosTau6.masked, 
    BiocStyle,
    ComplexHeatmap,
    Gviz,
    MultiAssayExperiment,
    TCGAutils,
    TxDb.Hsapiens.UCSC.hg19.knownGene,
    curatedTCGAData,
    ensembldb,
    grid,
    knitr,
    org.Hs.eg.db,
    regioneR,
    rmarkdown,
    statmod
Description: The CNVRanger package implements a comprehensive tool suite for CNV analysis.
    This includes functionality for summarizing individual CNV calls across a population,
    assessing overlap with functional genomic regions, and association analysis 
    with gene expression and quantitative phenotypes.
License: Artistic-2.0
BugReports: https://github.com/waldronlab/CNVRanger/issues
Encoding: UTF-8
VignetteBuilder: knitr
biocViews: 
    CopyNumberVariation,
    DifferentialExpression,
    GeneExpression,
    GenomeWideAssociation,
    GenomicVariation,
    Microarray, 
    RNASeq,
    SNP 
RoxygenNote: 7.2.3