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BRGenomics
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see BRGenomics.
Tools for the Efficient Analysis of High-Resolution Genomics Data
Bioconductor version: 3.16
This package provides useful and efficient utilites for the analysis of high-resolution genomic data using standard Bioconductor methods and classes. BRGenomics is feature-rich and simplifies a number of post-alignment processing steps and data handling. Emphasis is on efficient analysis of multiple datasets, with support for normalization and blacklisting. Included are functions for: spike-in normalizing data; generating basepair-resolution readcounts and coverage data (e.g. for heatmaps); importing and processing bam files (e.g. for conversion to bigWig files); generating metaplots/metaprofiles (bootstrapped mean profiles) with confidence intervals; conveniently calling DESeq2 without using sample-blind estimates of genewise dispersion; among other features.
Author: Mike DeBerardine [aut, cre]
Maintainer: Mike DeBerardine <mike.deberardine at gmail.com>
citation("BRGenomics")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BRGenomics")
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("BRGenomics")
Details
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Follow Installation instructions to use this package in your R session.