Introduction

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.

Publications

Manual

The input format is FASTA/FASTQ. The output format is SAM. Please refer to the manual of bowtie for further details.

Reference

  1. Langmead, B., Trapnell, C., Pop, M. & Salzberg, S. L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome biology 10, R25 (2009).

Basic Infomation

NameBowtie
AccessionQT000006
Citation0
ContributorsLangmead B., Trapnell C., Pop M., Salzberg S. L, qomoteam
Permalinkhttp://bigd.big.ac.cn/cloud/tools/QT000006
Website
Created AtNovember 12, 2015
Updated AtNovember 10, 2016
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