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 [aut] |
| Maintainer: | Onur Karakaslar <eonurkara at gmail.com> |
| BugReports: | https://github.com/eonurk/cinaR/issues/ |
| License: | GPL-3 |
| URL: | https://github.com/eonurk/cinaR/ |
| NeedsCompilation: | no |
| Materials: | README,NEWS |
| CRAN checks: | cinaR results |
Documentation:
Downloads:
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=cinaRto link to this page.