BSgenomeForge
This is the released version of BSgenomeForge; for the devel version, see BSgenomeForge.
Forge your own BSgenome data package
Bioconductor version: Release (3.23)
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("BSgenomeForge")):Hervé Pagès, Atuhurira Kirabo Kakopo. BSgenomeForge: Forge your own BSgenome data package. doi:10.18129/B9.bioc.BSgenomeForge, R package version 1.12.0, https://bioconductor.org/packages/BSgenomeForge.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") 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")| Advanced BSgenomeForge usage | R Script | |
| A quick introduction to the BSgenomeForge package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, Annotation, DataImport, DataRepresentation, GenomeAnnotation, GenomeAssembly, Infrastructure, SequenceMatching, Sequencing, Software |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.17 (R-4.3) (3.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0), methods, BiocGenerics, IRanges, Seqinfo, GenomeInfoDb (>= 1.45.5), Biostrings (>= 2.77.2), BSgenome (>= 1.77.1) |
| Imports | utils, stats, Biobase, S4Vectors (>= 0.47.6), GenomicRanges (>= 1.61.1), BiocIO, rtracklayer (>= 1.69.1) |
| System Requirements | |
| URL | https://bioconductor.org/packages/BSgenomeForge |
| Bug Reports | https://github.com/Bioconductor/BSgenomeForge/issues |
See More
| Suggests | GenomicFeatures, Rsamtools, testthat, knitr, rmarkdown, BiocStyle, devtools, BSgenome.Celegans.UCSC.ce2 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | BSgenome, TmCalculator |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BSgenomeForge_1.12.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | BSgenomeForge_1.12.0.tgz |
| macOS Binary (sonoma-arm64) | BSgenomeForge_1.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BSgenomeForge |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BSgenomeForge |
| Package Short Url | https://bioconductor.org/packages/BSgenomeForge/ |
| Package Downloads Report | Download Stats |