Package: cinaR Type: Package Title: A Computational Pipeline for Bulk 'ATAC-Seq' Profiles Version: 0.2.3 Authors@R: c(person(given = "Onur", family = "Karakaslar", role = c("aut", "cre"), email = "eonurkara@gmail.com"), 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) . License: GPL-3 Encoding: UTF-8 LazyData: true URL: https://github.com/eonurk/cinaR/ BugReports: https://github.com/eonurk/cinaR/issues/ biocViews: 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 RoxygenNote: 7.1.2 Suggests: knitr, rmarkdown, markdown VignetteBuilder: knitr NeedsCompilation: no Packaged: 2022-05-17 08:45:32 UTC; onur-lumc Author: Onur Karakaslar [aut, cre], Duygu Ucar [aut] () Maintainer: Onur Karakaslar Repository: CRAN Date/Publication: 2022-05-18 14:00:09 UTC