DESCRIPTION

Package: chromVAR
Type: Package
Title: Chromatin Variation Across Regions
Version: 1.5.0
Authors@R: c(
    person("Alicia", "Schep", email = "aschep@gmail.com", role = c("aut","cre")),
    person("Jason", "Buenrostro", role = "ctb"),
    person("Caleb", "Lareau", role = "ctb"),
    person("William","Greenleaf", role = "ths"),
    person("Stanford University", role = "cph"))
Description: Determine variation in chromatin accessibility across sets of
    annotations or peaks. Designed primarily for single-cell or sparse chromatin
    accessibility data, e.g. from scATAC-seq or sparse bulk ATAC or DNAse-seq 
    experiments.
License: MIT + file LICENSE
Imports:
    IRanges,
    GenomeInfoDb,
    GenomicRanges,
    ggplot2,
    nabor,
    BiocParallel,
    BiocGenerics,
    Biostrings,
    TFBSTools,
    Rsamtools,
    S4Vectors,
    methods,
    Rcpp,
    grid,
    plotly,
    shiny,
    miniUI,
    stats,
    utils, 
    graphics,
    DT,
    Rtsne,
    Matrix,
    SummarizedExperiment,
    RColorBrewer,
    BSgenome
Depends:
    R (>= 3.4)
Suggests:
    JASPAR2016,
    BSgenome.Hsapiens.UCSC.hg19,
    readr,
    testthat,
    knitr,
    rmarkdown,
    pheatmap,
    motifmatchr
biocViews: SingleCell, Sequencing, GeneRegulation, ImmunoOncology
LazyData: TRUE
LinkingTo: Rcpp, RcppArmadillo
SystemRequirements: C++11
VignetteBuilder: knitr
RoxygenNote: 6.0.1