Package: chromstaR
Type: Package
Title: Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data
Version: 1.20.0
Author: Aaron Taudt, Maria Colome Tatche, Matthias Heinig, Minh Anh Nguyen
Maintainer: Aaron Taudt <aaron.taudt@gmail.com>
Description: This package implements functions for combinatorial and differential analysis of ChIP-seq data. It includes uni- and multivariate peak-calling, export to genome browser viewable files, and functions for enrichment analyses.
Depends:
    R (>= 3.3),
    GenomicRanges,
    ggplot2,
    chromstaRData
Imports:
    methods,
    utils,
    grDevices,
    graphics,
    stats,
    foreach,
    doParallel,
    BiocGenerics (>= 0.31.6),
    S4Vectors,
    GenomeInfoDb,
    IRanges,
    reshape2,
    Rsamtools,
    GenomicAlignments,
    bamsignals,
    mvtnorm
Suggests:
    knitr,
    BiocStyle,
    testthat,
    biomaRt
URL: https://github.com/ataudt/chromstaR
BugReports: https://github.com/ataudt/chromstaR/issues
License: Artistic-2.0
LazyLoad: yes
VignetteBuilder: knitr
biocViews: ImmunoOncology, Software, DifferentialPeakCalling, HiddenMarkovModel, ChIPSeq, HistoneModification, MultipleComparison, Sequencing, PeakDetection, ATACSeq
RoxygenNote: 7.1.0