Package: BRGenomics
Type: Package
Title: Tools for the Efficient Analysis of High-Resolution Genomics
        Data
Version: 1.0.0
Authors@R: person("Mike", "DeBerardine", email = "mike.deberardine@gmail.com", 
    role = c("aut", "cre"))
Description: 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.
License: Artistic-2.0
BugReports: https://github.com/mdeber/BRGenomics/issues
Encoding: UTF-8
LazyData: FALSE
RoxygenNote: 7.1.0
Depends: R (>= 4.0), rtracklayer, GenomeInfoDb, S4Vectors
Imports: GenomicRanges, parallel, IRanges, stats, Rsamtools,
        GenomicAlignments, DESeq2, SummarizedExperiment, utils, methods
Suggests: BiocStyle, knitr, rmarkdown, testthat, remotes, ggplot2,
        reshape2, Biostrings
biocViews: Software, DataImport, Sequencing, Coverage, RNASeq, ATACSeq,
        ChIPSeq, Transcription, GeneRegulation, GeneExpression,
        Normalization
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/BRGenomics
git_branch: RELEASE_3_11
git_last_commit: 5e449e9
git_last_commit_date: 2020-04-27
Date/Publication: 2020-04-27
NeedsCompilation: no
Packaged: 2020-04-28 04:34:21 UTC; biocbuild
Author: Mike DeBerardine [aut, cre]
Maintainer: Mike DeBerardine <mike.deberardine@gmail.com>
Built: R 4.0.0; ; 2020-04-28 14:20:28 UTC; unix
