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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:
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.