regioneR
Association analysis of genomic regions based on permutation tests
Bioconductor version: 3.23 · Package version: 1.44.0
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 | 2444 |
| Source branch | RELEASE_3_23 |
| biocViews | ChIPSeq, CopyNumberVariation, DNASeq, Genetics, MethylSeq, Software |
Documentation
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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 (7): annotatr, ChIPpeakAnno, CNVfilteR, CopyNumberPlots, karyoploteR, RgnTX, UMI4Cats