Bowtie2

Description

Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences. It is particularly good at aligning reads of about 50 up to 100s or 1,000s of characters, and particularly good at aligning to relatively long (e.g. mammalian) genomes. Bowtie 2 indexes the genome with an FM Index to keep its memory footprint small: for the human genome, its memory footprint is typically around 3.2 GB. Bowtie 2 supports gapped, local, and paired-end alignment modes.

Home page

http://bowtie-bio.sourceforge.net/bowtie2/index.shtml

Documentation

http://bowtie-bio.sourceforge.net/bowtie2/manual.shtml

License

Bowtie2 is free to use under the GPL v3.0.

Usage

Use

module avail Bowtie2

to see which versions of Bowtie2 are available. Use

module load Bowtie2/version

to get access to Bowtie2.