DegCre
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see DegCre.
Probabilistic association of DEGs to CREs from differential data
Bioconductor version: 3.19
DegCre generates associations between differentially expressed genes (DEGs) and cis-regulatory elements (CREs) based on non-parametric concordance between differential data. The user provides GRanges of DEG TSS and CRE regions with differential p-value and optionally log-fold changes and DegCre returns an annotated Hits object with associations and their calculated probabilities. Additionally, the package provides functionality for visualization and conversion to other formats.
Author: Brian S. Roberts [aut, cre]
Maintainer: Brian S. Roberts <brianroberts1976 at yahoo.com>
citation("DegCre")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DegCre")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DegCre")
Details
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Follow Installation instructions to use this package in your R session.