SNPest specifications
- Unique identifier:
- OMICS_08845
- Interface:
- Command line interface
- Input data:
- SNPest takes input generated by the “samtools mpileup -s” command (or equivalent) reporting nucleotides mapped to each position together with read qualities and mapping qualities.
- Operating system:
- Unix/Linux, Mac OS
- License:
- GNU General Public License version 2.0
- Stability:
- Stable
- Software type:
- Package/Module
- Restrictions to use:
- None
- Output data:
- The output is in VCF format with a line per position covered in the genome.
- Programming languages:
- C++, Perl
- Computer skills:
- Advanced
- Maintained:
- Yes
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SNPest support
Documentation
Maintainer
- Stinus Lindgreen <>
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Publications
-
(Lindgreen et al., 2014)
SNPest: a probabilistic graphical model for estimating genotypes.
BMC Res Notes.
PMID: 25294605 DOI: 10.1186/1756-0500-7-698 -
(Rasmussen et al., 2010)
Ancient human genome sequence of an extinct Palaeo-Eskimo.
Nature.
PMID: 20148029 DOI: 10.1038/nature08835
Institution(s)
Section for Computational and RNA Biology, Department of Biology, University of Copenhagen, Ole Maaloes Vej, Copenhagen, Denmark
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