BWA specifications

Unique identifier:
OMICS_00654
Alternative names:
BWA-MEM, BWA-SW, BWA-backtrack, MEM, ELM
Interface:
Command line interface
Input format:
FASTQ
Output format:
SAM
Operating system:
Unix/Linux
License:
GNU General Public License version 3.0
Stability:
Stable
Name:
Burrows-Wheeler Aligner
Software type:
Package/Module
Restrictions to use:
None
Output data:
Short read alignment
Biological technology:
Illumina, Oxford Nanopore
Programming languages:
C, Javascript
Computer skills:
Advanced
Maintained:
Yes

Subtools

  • mem
  • aln
  • samse
  • sampe
  • index
  • bwasw

versioning

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No versioning.

BWA distribution

download

BWA support

Documentation

Maintainer

  • Richard Durbin <>

Additional information

(Li, 2013) Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXiv.https://arxiv.org/abs/1303.3997

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Credits

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Publications

Institution(s)

Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, UK

Funding source(s)

Wellcome Trust 077192/Z/05/Z

User review

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3 user reviews

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3 user reviews

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Arup Ghosh's avatar image Arup Ghosh's country flag

Arup Ghosh

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Easy to use and fast short read aligner for ChIP-seq, RNA-seq, Variant calling and other NGS data.

Francois Sabot's avatar image Francois Sabot's country flag

Francois Sabot

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We use BWA on a daily-basis and its results are always reliable and trustable.
We tested it in ALN/SAMPE legacy version and in MEM, and used those two versions depending the objectives.
The options are clear, tool is easy to use and efficient

Joseale Romero's avatar image Joseale Romero's country flag

Joseale Romero

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Good short read alignment. Fairly easy to use.