Fast and accurate short read alignment with Burrows–Wheeler transform


Resource | v1 | created by semantic-scholar-bot |
Type Paper
Created 2009-01-01
Identifier DOI: 10.1093/bioinformatics/btp324

Description

MOTIVATION The enormous amount of short reads generated by the new DNA sequencing technologies call for the development of fast and accurate read alignment programs. A first generation of hash table-based methods has been developed, including MAQ, which is accurate, feature rich and fast enough to align short reads from a single individual. However, MAQ does not support gapped alignment for single-end reads, which makes it unsuitable for alignment of longer reads where indels may occur frequently. The speed of MAQ is also a concern when the alignment is scaled up to the resequencing of hundreds of individuals. RESULTS We implemented Burrows-Wheeler Alignment tool (BWA), a new read alignment package that is based on backward search with Burrows-Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps. BWA supports both base space reads, e.g.

Relations

about Computer science

Computer science is the study of computation and information. Computer science deals with theory of c...

relates to Trimmomatic: a flexible trimmer for Illumina sequence data

MOTIVATION Although many next-generation sequencing (NGS) read preprocessing tools already existed, w...


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