| read.Structure {assignPOP} | R Documentation |
Read Structure format file
Description
This function allows you to import a STRUCTURE format file into R. The first row should be locus name (either with or withour column names for sample ID and population label); the first column should be sample ID; the second column should be population label; the rest are genotype. Use "-9" for missing alleles.
Usage
read.Structure(x, ploidy = 2)
Arguments
x |
STRUCTURE file or path to the file. The filename extension (e.g., .txt) should be included. |
ploidy |
An integer of 1, 2, 3, or 4, to indicate haploid, diploid, triploid, or tetraploid data. Default is 2 (diploid). |
Value
This function returns a list comprising three elements. 1. YOU_NAME_IT$DataMatrix: A matrix of genetic data with a population name label ($popNameVector) in the last column. 2. YOU_NAME_IT$SampleID: A vector of sample ID. 3. YOU_NAME_IT$LocusName: A vector of locus name.
References
Pritchard, J.K., Stephens, M. and Donnelly, P., 2000. Inference of population structure using multilocus genotype data. Genetics, 155(2), pp.945-959.
Examples
# infile <- read.Structure("Your_Structure_File.txt")