cinaR: A Computational Pipeline for Bulk 'ATAC-Seq' Profiles

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>.

Version: 0.2.3
Depends: R (≥ 4.0.0)
Imports: ChIPseeker, DESeq2, dplyr, edgeR, fgsea, GenomicRanges, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, ggplot2, ggrepel, grDevices, limma, utils, pheatmap, preprocessCore, RColorBrewer, sva, writexl
Suggests: knitr, rmarkdown, markdown
Published: 2022-05-18
DOI: 10.32614/CRAN.package.cinaR
Author: Onur Karakaslar [aut, cre], Duygu Ucar ORCID iD [aut]
Maintainer: Onur Karakaslar <eonurkara at>
License: GPL-3
NeedsCompilation: no
Materials: README NEWS
CRAN checks: cinaR results


Reference manual: cinaR.pdf
Vignettes: cinaR


Package source: cinaR_0.2.3.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): cinaR_0.2.3.tgz, r-release (x86_64): not available, r-oldrel (x86_64): not available
Old sources: cinaR archive


Please use the canonical form to link to this page.