Difference between revisions of "MAQ"
m (Text replace - "([= ])[Mm]apping," to "$1Read mapping,") |
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|sw summary=Mapping and Assembly with Qualities (renamed from MAPASS2). Particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has preliminary functions to handle ABI SOLiD data. | |sw summary=Mapping and Assembly with Qualities (renamed from MAPASS2). Particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has preliminary functions to handle ABI SOLiD data. | ||
|bio domain=Genomics, SNP discovery, | |bio domain=Genomics, SNP discovery, | ||
− | |bio method= | + | |bio method=Read mapping, |
|created by=Heng Li | |created by=Heng Li | ||
|created at=The Wellcome Trust Sanger Institute | |created at=The Wellcome Trust Sanger Institute |
Revision as of 18:42, 5 November 2015
Application data |
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Created by | Heng Li |
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Biological application domain(s) | Genomics, SNP discovery |
Principal bioinformatics method(s) | Read mapping |
Created at | The Wellcome Trust Sanger Institute |
Maintained? | No |
Input format(s) | FASTA, FASTQ |
Output format(s) | Maq |
Programming language(s) | C++, Perl |
Licence | GPL |
Summary: Mapping and Assembly with Qualities (renamed from MAPASS2). Particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has preliminary functions to handle ABI SOLiD data.
"Error: no local variable "counter" was set." is not a number.
MAQ has been superseded by other, faster mapping programs, such as BWA by the same author. However, it's still good for some things (SNP calling mainly) and as it's primarily an alignment tool. It also comes with some useful PERL scripts for format conversion etc. MAQ does not align reads with indels.
MAQ's nonstandard output format can be converted to SAM format with tools included in the SAMtools distribution.
Links
References
To add a reference for MAQ, enter the PubMed ID in the field below and click 'Add'.
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