regioneR
Association analysis of genomic regions based on permutation tests
Bioconductor version: 3.24 · Package version: 1.45.0
regioneR offers a statistical framework based on customizable permutation tests to assess the association between genomic region sets and other genomic features.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("regioneR")Details
| Maintainer | Bernat Gel <bgel@imppc.org> |
| Author | Anna Diez-Villanueva <adiez@iconcologia.net>, Roberto Malinverni <roberto.malinverni@gmail.com> and Bernat Gel <bgel@igtp.cat> |
| License | Artistic-2.0 |
| Downloads rank | 2621 |
| Source branch | devel |
| biocViews | ChIPSeq, CopyNumberVariation, DNASeq, Genetics, MethylSeq, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | regioneR_1.45.0.tar.gz |
| Windows binary (x86_64) | regioneR_1.45.0.zip |
| macOS binary (arm64) | regioneR_1.45.0.tgz |
| macOS binary (x86_64) | regioneR_1.45.0.tgz |
Dependencies
Depends: GenomicRanges
Imports: memoise, GenomicRanges, IRanges, BSgenome, Biostrings, rtracklayer, parallel, graphics, stats, utils, methods, Seqinfo, GenomeInfoDb, S4Vectors, tools
Suggests: BiocStyle, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19.masked, testthat
Reverse dependencies
Depends On Me (2): karyoploteR, regioneReloaded
Imports Me (6): annotatr, ChIPpeakAnno, CNVfilteR, CopyNumberPlots, karyoploteR, UMI4Cats