Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg

Research output: Contribution to journalArticlepeer-review

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.

Original languageEnglish (US)
Pages (from-to)357-359
Number of pages3
JournalNature Methods
Volume9
Issue number4
DOIs
StatePublished - Apr 1 2012

ASJC Scopus subject areas

  • Biotechnology
  • Biochemistry
  • Molecular Biology
  • Cell Biology

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