readGenalex-package: Read, manipulate, write and convert GenAlEx-format genotype...

In douglasgscofield/readGenalex: Read, Write, Manipulate and Convert GenAlEx-Format Genotype Files

Description

A collection of R functions to read, manipulate, write and convert genotype data in GenAlEx format. GenAlEx is a widely-used Excel plugin for manipulating and analysing genotype data. This package reads GenAlEx-format data from a text file or directly from Excel files and creates an annotated data frame of class genalex. Several functions are provided for accessing, manipulating and printing this data. Additional functions are provided for converting class genalex objects to class loci from the pegas package, for converting genotypes to classes genotype and haplotype from the genetics package, and for writing a class genalex object to a file in Genepop format. GenAlEx and its documentation are available at http://biology-assets.anu.edu.au/GenAlEx. Descriptions of the file format and of the annotations added to the class as attributes are available via help(readGenalex).

References

Peakall, R. and Smouse P.E. (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics 28, 2537-2539.

Peakall, R. and Smouse P.E. (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes 6, 288-295.

https://github.com/douglasgscofield/readGenalex

See Also

readGenalex

douglasgscofield/readGenalex documentation built on May 15, 2019, 10:43 a.m.