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allelematch (version 2.5.4)

Identifying Unique Multilocus Genotypes where Genotyping Error and Missing Data may be Present

Description

Tools for the identification of unique of multilocus genotypes when both genotyping error and missing data may be present; targeted for use with large datasets and databases containing multiple samples of each individual (a common situation in conservation genetics, particularly in non-invasive wildlife sampling applications). Functions explicitly incorporate missing data and can tolerate allele mismatches created by genotyping error. If you use this package, please cite the original publication in Molecular Ecology Resources (Galpern et al., 2012), the details for which can be generated using citation('allelematch'). For a complete vignette, please access via the Data S1 Supplementary documentation and tutorials (PDF) located at .

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Version

Install

install.packages('allelematch')

Monthly Downloads

415

Version

2.5.4

License

GPL (>= 2)

Maintainer

Todd Cross

Last Published

March 28th, 2024

Functions in allelematch (2.5.4)

allelematch-package

Identification of unique multilocus genotypes
amCSSForHTML

Produce cascading style sheet (CSS) for HTML
amUnique

Identification of unique genotypes
amDataset

Prepare a dataset for use with allelematch
amCluster

Clustering of multilocus genotypes
amMatrix

Produce a dissimilarity matrix for pairs of multilocus genotypes
amPairwise

Pairwise matching of multilocus genotypes
amUniqueProfile

Determine optimal parameter values for the identification of unique genotypes
amAlleleFreq

Determine allele frequencies
amExampleData

Data sets to support the tutorials in the supplementary documentation and examples in the manual