Rbowtie2
An R Wrapper for Bowtie2 and AdapterRemoval
Bioconductor version: 3.23 · Package version: 2.18.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Rbowtie2")Details
| Maintainer | Zheng Wei <wzweizheng@qq.com> |
| Author | Zheng Wei [aut, cre], Wei Zhang [aut] |
| License | GPL (>= 3) |
| System Requirements | C++11, GNU make, samtools |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Alignment, Preprocessing, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/Rbowtie2/ |
Citation
From within R, enter citation("Rbowtie2"):
Zheng Wei, Wei Zhang. Rbowtie2: An R Wrapper for Bowtie2 and AdapterRemoval. doi:10.18129/B9.bioc.Rbowtie2, R package version 2.18.0, https://bioconductor.org/packages/Rbowtie2.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | Rbowtie2_2.18.0.tar.gz |
| Windows binary (x86_64) | Rbowtie2_2.18.0.zip |
| macOS binary (arm64) | Rbowtie2_2.18.0.tgz |
| macOS binary (x86_64) | Rbowtie2_2.18.0.tgz |
Reverse dependencies
Imports Me (4): CircSeqAlignTk, esATAC, MetaScope, UMI4Cats