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BSgenomeForge

Forge BSgenome data packages


Bioconductor version: Release (3.18)

A set of tools to forge BSgenome data packages. Supersedes the old seed-based tools from the BSgenome software package. This package allows the user to create a BSgenome data package in one function call, simplifying the old seed-based process.

Author: Hervé Pagès [aut, cre], Atuhurira Kirabo Kakopo [aut], Emmanuel Chigozie Elendu [ctb], Prisca Chidimma Maduka [ctb]

Maintainer: Hervé Pagès <hpages.on.github at gmail.com>

Citation (from within R, enter citation("BSgenomeForge")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BSgenomeForge")

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("BSgenomeForge")
How to use the BSgenomeForge package to forge a BSgenome data package HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Alignment, Annotation, DataImport, DataRepresentation, Genetics, GenomeAnnotation, Infrastructure, SequenceMatching, Sequencing, Software
Version 1.2.1
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License Artistic-2.0
Depends R (>= 4.3.0), methods, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb(>= 1.33.17), Biostrings, BSgenome
Imports utils, stats, Biobase, rtracklayer
System Requirements
URL https://bioconductor.org/packages/BSgenomeForge
Bug Reports https://github.com/Bioconductor/BSgenomeForge/issues
See More
Suggests GenomicRanges, GenomicFeatures, testthat, knitr, rmarkdown, BiocStyle, devtools
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me BSgenome
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BSgenomeForge_1.2.1.tar.gz
Windows Binary
macOS Binary (x86_64) BSgenomeForge_1.2.1.tgz
macOS Binary (arm64) BSgenomeForge_1.2.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/BSgenomeForge
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BSgenomeForge
Bioc Package Browser https://code.bioconductor.org/browse/BSgenomeForge/
Package Short Url https://bioconductor.org/packages/BSgenomeForge/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.18 Source Archive