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


BACKGROUND
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/.
Paradis
Emmanuel
E
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
D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D005828:Genetics, Population; D006239:Haplotypes; D012984:Software