Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction.

ABSTRACT: Many microbial, fungal, or oomcyete populations violate assumptions for population genetic analysis because these populations are clonal, admixed, partially clonal, and/or sexual. Furthermore, few tools exist that are specifically designed for analyzing data from clonal populations, making analysis difficult and haphazard. We developed the R package poppr providing unique tools for analysis of data from admixed, clonal, mixed, and/or sexual populations. Currently, poppr can be used for dominant/codominant and haploid/diploid genetic data. Data can be imported from several formats including GenAlEx formatted text files and can be analyzed on a user-defined hierarchy that includes unlimited levels of subpopulation structure and clone censoring. New functions include calculation of Bruvo's di

SUBMITTER: Kamvar ZN 

PROVIDER: S-EPMC3961149 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature