| tetraPotato {netgwas} | R Documentation |
tetraploid potato genotype data
Description
Tetraploid potato (Solanum tuberosum L.) genotype data.
Usage
data(tetraPotato)Format
The format is a matrix containing 1972 single-nucleotide polymorphism (SNP) markers for 156 individuals.
Details
The full-sib mapping population MSL603 consists of 156 F1 plants resulting from a cross between female parent "Jacqueline Lee" and male parent "MSG227-2". The obtained genotype data contain 1972 SNP markers with five allele dosages. This genotype data can be used to construct linkage map for tetraploid potato (see below example).
Source
Massa, Alicia N., Norma C. Manrique-Carpintero, Joseph J. Coombs, Daniel G. Zarka, Anne E. Boone, William W. Kirk, Christine A. Hackett, Glenn J. Bryan, and David S. Douches. "Genetic linkage mapping of economically important traits in cultivated tetraploid potato (Solanum tuberosum L.)." G3: Genes, Genomes, Genetics 5, no. 11 (2015): 2357-2364.
Examples
data(tetraPotato)
#Shuffle the order of markers
potato <- tetraPotato[ , sample(ncol(tetraPotato))]
#Constructing linkage map for tetraploid potato
out <- netmap(potato, cross = "outbred"); out
potato.map <- out$map; potato.map
#plot(out)