DESCRIPTION

Package: diffloop
Type: Package
Title: Identifying differential DNA loops from chromatin topology data
Version: 1.3.4
Date: 2016-11-30
Authors@R: c(
    person("Caleb", "Lareau", email = "caleblareau@g.harvard.edu", role = c("aut", "cre")),
    person("Martin", "Aryee", email = "aryee.martin@mgh.harvard.edu", role = "aut")
    )
Maintainer: Caleb Lareau <caleblareau@g.harvard.edu>
Author: Caleb Lareau [aut, cre], Martin Aryee [aut]
Description: A suite of tools for subsetting, visualizing, annotating,
    and statistically analyzing the results of one or more ChIA-PET
    experiments or other assays that infer chromatin loops. 
Imports:
    methods,
    GenomicRanges,
    foreach,
    plyr,
    dplyr,
    reshape2,
    ggplot2,
    matrixStats,
    Sushi,
    edgeR,
    locfit,
    statmod,
    biomaRt,
    GenomeInfoDb,
    S4Vectors,
    IRanges,
    grDevices,
    graphics,
    stats,
    utils,
    Biobase,
    readr,
    data.table,
    rtracklayer,
    pbapply,
    limma
License: MIT + file LICENSE
URL: https://github.com/aryeelab/diffloop
BugReports: https://github.com/aryeelab/diffloop/issues
LazyData: TRUE
Suggests:
    DESeq2,
    diffloopdata,
    ggrepel,
    knitr,
    rmarkdown,
    testthat
VignetteBuilder: knitr
RoxygenNote: 5.0.1
Collate:
    'diffloop.R'
    'diffloop-class.R'
    'data.R'
    'core.R'
    'pipeline_io.R'
    'loopFunctions.R'
    'sugar.R'
    'union.R'
    'annotation.R'
    'assoc.R'
    'colData.R'
    'mangoFunctions.R'
    'plotting.R'
    'ruan.R'
biocViews: Preprocessing, QualityControl, Visualization, DataImport,
    DataRepresentation, GO
NeedsCompilation: no