DOI: 10.18129/B9.bioc.Rbowtie2  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see Rbowtie2.

An R Wrapper for Bowtie2 and AdapterRemoval

Bioconductor version: 3.17

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. The package contains wrapper functions that allow for genome indexing and alignment to those indexes. The package also allows for the creation of .bam files via Rsamtools.

Author: Zheng Wei [aut, cre], Wei Zhang [aut]

Maintainer: Zheng Wei <wzweizheng at qq.com>

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


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


biocViews Alignment, Preprocessing, Sequencing, Software
Version 2.6.0
In Bioconductor since BioC 3.6 (R-3.4) (6 years)
License GPL (>= 3)
Depends R (>= 4.1.0)
Imports magrittr, Rsamtools
Suggests knitr, testthat (>= 3.0.0), rmarkdown
SystemRequirements C++11, GNU make, samtools
Depends On Me
Imports Me CircSeqAlignTk, esATAC, MetaScope, UMI4Cats
Suggests Me
Links To Me
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Source Package Rbowtie2_2.6.0.tar.gz
Windows Binary Rbowtie2_2.6.0.zip
macOS Binary (x86_64) Rbowtie2_2.6.0.tgz
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Bioc Package Browser https://code.bioconductor.org/browse/Rbowtie2/
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