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Fast Gapped-read Alignment with Bowtie 2

Overview
Journal Nat Methods
Specialties Biomedical Engineering
Pathology
Date 2012 Mar 6
PMID 22388286
Citations 26305
Authors
Ben Langmead
Steven L Salzberg
Affiliations
Soon will be listed here.
Abstract

As the rate of sequencing increases, greater throughput is demanded from read aligners. The full-text minute index is often used to make alignment very fast and memory-efficient, but the approach is ill-suited to finding longer, gapped alignments. Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.

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