PopGenome specifications

Unique identifier:
OMICS_08604
Interface:
Command line interface
Input data:
An almost de facto standard for whole-genome variation data is the variant call format (VCF), used, among others, by the 1000 genomes project and the UK10k project. PopGenome can read large SNP data sets stored in this format very efficiently, using indexes created with Tabix.
Operating system:
Unix/Linux
License:
GNU General Public License version 3.0
Version:
2.1.6
Requirements:
ff
Software type:
Package/Module
Restrictions to use:
None
Input format:
FASTA, NEXUS, MEGA, MAF, and Phylip
Programming languages:
C, C++, R
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

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PopGenome support

Documentation

Maintainer

  • Bastian Pfeifer <>

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Publications

Institution(s)

Institute for Computer Science, Heinrich Heine University, Düsseldorf, Germany; Centre for Research in Agricultural Genomics, Bellaterra, Spain; Cluster of Excellence on Plant Sciences, Düsseldorf, Germany

Funding source(s)

This work was supported by the Spanish Ministerio de Ciencia e Innovación Grant CGL2009-09346 and by the German Research Foundation DFG grants EXC 1028 and CRC 680.

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