DESCRIPTION

Package: cinaR
Type: Package
Title: A Computational Pipeline for Bulk 'ATAC-Seq' Profiles
Version: 0.2.4
Authors@R: 
    c(person(given = "Onur",
             family = "Karakaslar",
             role = c("aut", "cre"),
             email = "eonurkara@gmail.com",
             comment = c(ORCID = "0000-0002-9182-910X")),
      person(given = "Duygu",
             family = "Ucar",
             role = "aut",
             comment = c(ORCID = "0000-0002-9772-3066"))
      )
Description: Differential analyses and Enrichment pipeline for bulk 'ATAC-seq' data
  analyses. This package combines different packages to have an ultimate package
  for both data analyses and visualization of 'ATAC-seq' data. Methods are described in 
  'Karakaslar et al.' (2021) <doi:10.1101/2021.03.05.434143>.
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/eonurk/cinaR/,
    https://eonurk.github.io/cinaR/
BugReports: https://github.com/eonurk/cinaR/issues/
biocViews:
Depends: R (>= 4.0.0)
Imports: BiocManager,
         DESeq2, 
         dplyr,
         edgeR, 
         fgsea,
         GenomicRanges, 
         ggplot2,
         ggrepel,
         grDevices,
         limma, 
         utils, 
         pheatmap,
         preprocessCore, 
         RColorBrewer,
         sva,
         writexl 
RoxygenNote: 7.2.3
Suggests: ChIPseeker, 
          knitr,
          rmarkdown,
          markdown,
          TxDb.Hsapiens.UCSC.hg38.knownGene, 
          TxDb.Hsapiens.UCSC.hg19.knownGene, 
          TxDb.Mmusculus.UCSC.mm10.knownGene
VignetteBuilder: knitr, rmarkdown, markdown