Package: Rbowtie2 2.18.0

Zheng Wei

Rbowtie2: An R Wrapper for Bowtie2 and AdapterRemoval

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.

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

Rbowtie2_2.18.0.tar.gz
Rbowtie2_2.18.0.zip(r-4.7)Rbowtie2_2.18.0.zip(r-4.6)Rbowtie2_2.18.0.zip(r-4.5)
Rbowtie2_2.18.0.tgz(r-4.6-x86_64)Rbowtie2_2.18.0.tgz(r-4.6-arm64)Rbowtie2_2.18.0.tgz(r-4.5-x86_64)Rbowtie2_2.18.0.tgz(r-4.5-arm64)
Rbowtie2_2.18.0.tar.gz(r-4.7-arm64)Rbowtie2_2.18.0.tar.gz(r-4.7-x86_64)Rbowtie2_2.18.0.tar.gz(r-4.6-arm64)Rbowtie2_2.18.0.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
card.svg |card.png
Rbowtie2/json (API)
NEWS

# Install 'Rbowtie2' in R:
install.packages('Rbowtie2', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3

On BioConductor:Rbowtie2-2.19.0(bioc 3.24)Rbowtie2-2.18.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

sequencingalignmentpreprocessingcpp

5.55 score 3 packages 39 scripts 728 downloads 10 exports 22 dependencies

Last updated from:9ab99b5684 (on RELEASE_3_23). Checks:9 NOTE, 1 OK, 3 WARNING, 1 FAIL. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE285
linux-devel-arm64NOTE355
linux-devel-x86_64NOTE375
source / vignettesOK557
linux-release-arm64NOTE356
linux-release-x86_64NOTE359
macos-release-arm64NOTE214
macos-release-x86_64NOTE697
macos-oldrel-arm64NOTE262
macos-oldrel-x86_64NOTE763
windows-develWARNING406
windows-releaseWARNING355
windows-oldrelWARNING366
wasm-releaseFAIL226

Exports:adapterremoval_usageadapterremoval_versionbowtie2bowtie2_buildbowtie2_build_usagebowtie2_samtoolsbowtie2_usagebowtie2_versionidentify_adaptersremove_adapters

Dependencies:BHBiocGenericsBiocParallelBiostringsbitopscodetoolscpp11crayonformatRfutile.loggerfutile.optionsgenericsGenomicRangesIRangeslambda.rmagrittrRhtslibRsamtoolsS4VectorsSeqinfosnowXVector

An Introduction to Rbowtie2

Zheng Wei and Wei Zhang

Rendered fromRbowtie2-Introduction.Rmdusingknitr::rmarkdownon Jun 12 2026.

Last update: 2021-09-18
Started: 2017-08-23