cinaR is a single wrapper function for end-to-end
computational analyses of bulk ATAC-seq (or RNA-seq) profiles. Starting
from a consensus peak file, it outputs differentially accessible peaks,
enrichment results, and provides users with various configurable
visualization options. For more details, please see the preprint.
# CRAN mirror
install.packages("cinaR")To get bug fix and use a feature from the development version:
# install.packages("devtools")
devtools::install_github("eonurk/cinaR")For more details please go to our site from here!
Sometimes bioconductor related packages may not be installed
automatically.
Therefore, you may need to install them manually:
BiocManager::install(c("ChIPseeker", "DESeq2", "edgeR", "fgsea","GenomicRanges", "limma", "preprocessCore", "sva", "TxDb.Hsapiens.UCSC.hg38.knownGene", "TxDb.Hsapiens.UCSC.hg19.knownGene", "TxDb.Mmusculus.UCSC.mm10.knownGene"))You can send pull requests to make your contributions.