The Rbowtie R package provides an R interface to the
bowtie short-read aligner by
Langmead et al. (2009), as well as to
SpliceMap by Au et al. (2010).
The package contains wrapper functions to create a genome index and to perform
the read alignment to the generated index. These are used by the
QuasR bioconductor package.
We recommend to use the QuasR package instead of using Rbowtie directly.
The source code for bowtie v1.3.0 was obtained from https://github.com/BenLangmead/bowtie/archive/v1.3.0.tar.gz on November 2, 2020. The folders genomes, reads, doc, indexes and scripts were not included into the package to reduce its size.
| Platforms | OS | R CMD check | Coverage |
|---|---|---|---|
| GitHub Actions | Linux/Windows/macOS |  |
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| Bioc (devel) | Multiple |  |
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| Bioc (release) | Multiple |  |
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