While functions for genotypic diversity and clone censoring are specific for clonal populations, several functions found in poppr are also valuable to analysis of any populations. New functions include calculation of Bruvo’s distance for microsatellites, batch-analysis of the index of association with several indices of genotypic diversity, and graphing including dendrograms with bootstrap support and minimum spanning networks. 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. Currently, poppr can be used for dominant/codominant and haploid/diploid genetic data. We developed the R package poppr providing unique tools for analysis of data from admixed, clonal, mixed, and/or sexual populations. Furthermore, few tools exist that are specifically designed for analyzing data from clonal populations, making analysis difficult and haphazard. Many microbial, fungal, or oomcyete populations violate assumptions for population genetic analysis because these populations are clonal, admixed, partially clonal, and/or sexual. 5.4.2 Negative Values of \(\bar_d\) Unilaterally.5.4.1 Clone Correction Negatively Impacts Clonal Inference.5 Factors Influencing Inference of Clonality in Diploid Populations.4.4.4 Clustering of forest with nursery populations.4.4.1 Demographic pattern and genetic diversity.4.3.4 Genotyping, data validation, and harmonization.4.3.3 Isolation, identification and DNA extraction.4 Spatial and Temporal Analysis of Populations of the Sudden Oak Death Pathogen in Oregon Forests.3.3.6 Data format updates: population strata and hierarchies.3.3.2 Minimum Spanning Networks with Reticulation.3 Novel R Tools For Analysis of Genome-Wide Population Genetic Data With Emphasis on Clonality.2.4 Citation of methods implemented in poppr.2 Poppr: an R Package For Genetic Analysis of Populations With Clonal, Partially Clonal, and/or Sexual Reproduction.1.2 Population Genetics Under the Lens of Plant Pathology.
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