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Bioinformatics. 2010 Feb 1;26(3):419-20. doi: 10.1093/bioinformatics/btp696. Epub 2010 Jan 14.

pegas: an R package for population genetics with an integrated-modular approach.

Author information

1
Institut de Recherche pour le Développement, UR175 CAVIAR, BP 5095, 361 rue Jean-François Breton, F-34196 Montpellier Cédex 5, France. emmanuel.paradis@ird.fr

Abstract

SUMMARY:

pegas (Population and Evolutionary Genetics Analysis System) is a new package for the analysis of population genetic data. It is written in R and is integrated with two other existing R packages (ape and adegenet). pegas provides functions for standard population genetic methods, as well as low-level functions for developing new methods. The flexible and efficient graphical capabilities of R are used for plotting haplotype networks as well as for other functionalities. pegas emphasizes the need to further develop an integrated-modular approach for software dedicated to the analysis of population genetic data.

AVAILABILITY:

pegas is distributed through the Comprehensive R Archive Network (CRAN): http://cran.r-project.org/web/packages/pegas/index.html. Further information may be found at: http://ape.mpl.ird.fr/pegas/.

PMID:
20080509
DOI:
10.1093/bioinformatics/btp696
[Indexed for MEDLINE]

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