Aligning short sequencing reads with Bowtie

Curr Protoc Bioinformatics. 2010 Dec:Chapter 11:Unit 11.7. doi: 10.1002/0471250953.bi1107s32.

Abstract

This unit shows how to use the Bowtie package to align short sequencing reads, such as those output by second-generation sequencing instruments. It also includes protocols for building a genome index and calling consensus sequences from Bowtie alignments using SAMtools.

MeSH terms

  • Algorithms
  • Consensus Sequence
  • Genome
  • Genomics / methods*
  • Sequence Alignment / methods*
  • Sequence Analysis, DNA / methods*
  • Software*