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SNP-o-matic specifications
Information
| Unique identifier | OMICS_15114 |
|---|---|
| Name | SNP-o-matic |
| Software type | Application/Script, Package/Module |
| Interface | Command line interface |
| Restrictions to use | None |
| Input data | The reference genome sequence, the sequence reads, a list of putative SNPs. |
| Input format | FASTA, FASTQ |
| Output data | The predicted mapping/alignment. |
| Operating system | Unix/Linux |
| Programming languages | C++ |
| License | GNU General Public License version 3.0 |
| Computer skills | Advanced |
| Version | 1.0 |
| Stability | Stable |
| Source code URL | https://codeload.github.com/magnusmanske/snpomatic/tar.gz/v1.0 |
| Maintained | Yes |
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Versioning
No version available
Documentation
- Documentation: http://snpomatic.sourceforge.net/snpomatic_manual.pdf
Maintainer
- person_outline Heinrich Magnus Manske
Publication for SNP-o-matic
library_books
SNP-o-matic
2009 Bioinformatics
PMCID: 2735664
PMID: 19574284
DOI: 10.1093/bioinformatics/btp403
SNP-o-matic citation
library_books
Approaches for in silico finishing of microbial genome sequences
2017
Genet Mol Biol
PMCID: 5596377
PMID: 28898352
DOI: 10.1590/1678-4685-GMB-2016-0230
[…] ucleotides) (): is an automated pipeline for assembly correction. Using a paired-end library, the program performs the read remapping using SSAH () and the variant calling and coverage analysis using SNP-o-matic (). The correction of the reference is followed by a new coverage analysis. If the correction promoted an improvement in the coverage, a new iteration commences, and the corrected sequence […]
SNP-o-matic institution(s)
Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK
SNP-o-matic funding source(s)
This work was supported by the Wellcome Trust, Bill and Melinda Gates Foundation and Medical Research Council.
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