DESCRIPTION

Package: DMRichR
Title: Enrich your DMR Analysis with the Tidyverse
Version: 1.7.8
Authors@R: c(
  person("Ben", "Laufer", email = "blaufer@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-7558-1335")),
  person("Hyeyeon", "Hwang", email = "hyeyeon_hwang@brown.edu", role = "ctb", comment = c(ORCID = "0000-0002-7918-728X")),
  person("Charles", "Mordaunt", email = "mordauntcharles@gmail.com", role = "ctb", comment = c(ORCID = "0000-0002-3820-3298"))
  )
Description: A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) and global methylation levels from CpG count matrices (Bismark cytosine reports).
Depends: 
  R (>= 3.5.0),
  dmrseq,
  bsseq
biocViews:
Imports: 
    BiocGenerics,
    Boruta,
    CMplot,
    ChIPseeker,
    GOfuncR,
    GenomeInfoDb,
    GenomicRanges,
    broom,
    enrichR,
    ggplot2,
    gplots,
    gt,
    lsmeans,
    openxlsx,
    rGREAT,
    rtracklayer,
    sigFeature,
    RColorBrewer,
    glue,
    grDevices,
    graphics,
    parallel,
    pheatmap,
    R2HTML,
    LOLA,
    PerformanceAnalytics,
    hablar,
    AnnotationHub,
    viridis,
    ggsci,
    minfi,
    Hmisc,
    data.table,
    BiocParallel,
    plyranges,
    wesanderson,
    dplyr,
    forcats,
    stringr,
    tidyr,
    purrr,
    tibble,
    readxl,
    readr,
    ensembldb,
    rrvgo,
    Glimma,
    BiocManager,
    magrittr,
    rlang,
    GenomicFeatures,
    DelayedMatrixStats,
    IRanges,
    stats,
    utils,
    tidyselect,
    Biobase,
    S4Vectors,
    PCAtools,
    scales
Suggests:
  knitr,
  markdown,
  rmarkdown,
  optparse,
  simpleCache,
  qvalue
License: MIT | file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.2.3
VignetteBuilder: knitr
URL: https://github.com/ben-laufer/DMRichR, https://ben-laufer.github.io/DMRichR, https://www.benlaufer.com/DMRichR/
BugReports: https://github.com/ben-laufer/DMRichR/issues