Rbowtie
This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see Rbowtie.
R bowtie wrapper
Bioconductor version: 3.17
This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool. The package is used by the QuasR bioconductor package. We recommend to use the QuasR package instead of using Rbowtie directly.
Author: Florian Hahne [aut], Anita Lerch [aut], Michael Stadler [aut, cre] 
Maintainer: Michael Stadler <michael.stadler at fmi.ch>
citation("Rbowtie")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Rbowtie")
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("Rbowtie")| An introduction to Rbowtie | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Alignment, Sequencing, Software |
| Version | 1.40.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
| License | Artistic-2.0 | file LICENSE |
| Depends | |
| Imports | utils |
| System Requirements | GNU make |
| URL | https://github.com/fmicompbio/Rbowtie |
| Bug Reports | https://github.com/fmicompbio/Rbowtie/issues |
See More
| Suggests | testthat, parallel, BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | QuasR |
| Imports Me | crisprBowtie, multicrispr, seqpac |
| Suggests Me | crisprDesign, eisaR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Rbowtie_1.40.0.tar.gz |
| Windows Binary | Rbowtie_1.40.0.zip (64-bit only) |
| macOS Binary (x86_64) | Rbowtie_1.40.0.tgz |
| macOS Binary (arm64) | Rbowtie_1.40.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Rbowtie |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Rbowtie |
| Bioc Package Browser | https://code.bioconductor.org/browse/Rbowtie/ |
| Package Short Url | https://bioconductor.org/packages/Rbowtie/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.17 | Source Archive |