[HTML][HTML] Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

B Langmead, C Trapnell, M Pop, SL Salzberg - Genome biology, 2009 - Springer
Genome biology, 2009Springer
Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence
reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie
to align more than 25 million reads per CPU hour with a memory footprint of approximately
1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-
aware backtracking algorithm that permits mismatches. Multiple processor cores can be
used simultaneously to achieve even greater alignment speeds. Bowtie is open source …
Abstract
Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU hour with a memory footprint of approximately 1.3 gigabytes. Bowtie extends previous Burrows-Wheeler techniques with a novel quality-aware backtracking algorithm that permits mismatches. Multiple processor cores can be used simultaneously to achieve even greater alignment speeds. Bowtie is open source http://bowtie.cbcb.umd.edu .
Springer