Introduction

Bowtie is an ultrafast, memory-efficient short read aligner geared toward quickly aligning large sets of short DNA sequences (reads) to large genomes.

Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: for the human genome, the index is typically about 2.2 GB (for unpaired alignment) or 2.9 GB (for paired-end or colorspace alignment). Multiple processors can be used simultaneously to achieve greater alignment speed.

For more information, visit the official Bowtie website.

Programming language: C

Brief description: ultrafast, memory-efficient short read aligner, used in the next generation of sequencers for short DNA sequences

Open source license: GPL 3.0