BSgenomeForge
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see BSgenomeForge.
Forge your own BSgenome data package
Bioconductor version: 3.20
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")):
Installation
To install this package, start R (version "4.4") 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")| A quick introduction to the BSgenomeForge package | HTML | R Script |
| Advanced BSgenomeForge usage | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, Annotation, DataImport, DataRepresentation, GenomeAnnotation, GenomeAssembly, Infrastructure, SequenceMatching, Sequencing, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.17 (R-4.3) (2 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0), methods, BiocGenerics, IRanges, GenomeInfoDb(>= 1.33.17), Biostrings, BSgenome |
| Imports | utils, stats, Biobase, S4Vectors, GenomicRanges, BiocIO, rtracklayer |
| 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 |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BSgenomeForge_1.6.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | BSgenomeForge_1.6.0.tgz |
| macOS Binary (arm64) | BSgenomeForge_1.6.0.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 |