Rbowtie

R bowtie wrapper

Bioconductor version: 3.23 · Package version: 1.52.0

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.

Installation

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

BiocManager::install("Rbowtie")

Details

Maintainer	Michael Stadler <michael.stadler@fmi.ch>
Author	Florian Hahne [aut], Anita Lerch [aut], Michael Stadler [aut, cre] (ORCID: <https://orcid.org/0000-0002-2269-4934>)
License	Artistic-2.0 \| file LICENSE
URL	https://github.com/fmicompbio/Rbowtie
Bug Reports	https://github.com/fmicompbio/Rbowtie/issues
System Requirements	GNU make
Downloads rank	863
Source branch	RELEASE_3_23
biocViews	Alignment, Sequencing, Software

Documentation

An introduction to Rbowtie

Download

Follow the installation instructions to use this package in your R session.

Source package	Rbowtie_1.52.0.tar.gz
Windows binary (x86_64)	Rbowtie_1.52.0.zip
macOS binary (arm64)	Rbowtie_1.52.0.tgz
macOS binary (x86_64)	Rbowtie_1.52.0.tgz

Dependencies

Imports: utils

Suggests: testthat, parallel, BiocStyle, knitr, rmarkdown

Reverse dependencies

Depends On Me (1): QuasR

Imports Me (3): crisprBowtie, multicrispr, seqpac

Suggests Me (2): crisprDesign, eisaR