Rbowtie2

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see Rbowtie2.

An R Wrapper for Bowtie2 and AdapterRemoval


Bioconductor version: 3.13

This package provides an R wrapper of the popular bowtie2 sequencing reads aligner and AdapterRemoval, a convenient tool for rapid adapter trimming, identification, and read merging.

Author: Zheng Wei, Wei Zhang

Maintainer: Zheng Wei <wzweizheng at qq.com>

Citation (from within R, enter citation("Rbowtie2")):

Installation

To install this package, start R (version "4.1") and enter:


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

BiocManager::install("Rbowtie2")

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("Rbowtie2")
An Introduction to Rbowtie2 HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Alignment, Preprocessing, Sequencing, Software
Version 1.14.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License GPL (>= 3)
Depends R (>= 3.5)
Imports
System Requirements C++11
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Suggests knitr
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Depends On Me
Imports Me esATAC, UMI4Cats
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Build Report Build Report

Package Archives

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

Source Package Rbowtie2_1.14.0.tar.gz
Windows Binary Rbowtie2_1.14.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) Rbowtie2_1.14.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Rbowtie2
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rbowtie2
Bioc Package Browser https://code.bioconductor.org/browse/Rbowtie2/
Package Short Url https://bioconductor.org/packages/Rbowtie2/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.13 Source Archive