Rbowtie-package {Rbowtie} | R Documentation

## R bowtie wrapper

### Description

This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool.

The package is used by the QuasR bioconductor package. We recommend to use QuasR instead of using `Rbowtie` directly. QuasR provides a simpler interface than `Rbowtie` and covers the whole analysis workflow of typical ultra-high throughput sequencing experiments, starting from the raw sequence reads, over pre-processing and alignment, up to quantification.

### Details

See packageDescription('Rbowtie') for package details.

### Author(s)

Florian Hahne, Anita Lerch, Michael B Stadler

### See Also

`bowtie`, `SpliceMap`

### Examples

    ## Not run:
        example(bowtie)
        example(SpliceMap)

    ## End(Not run)

[Package Rbowtie version 1.27.1 Index]