| CviCol {netgwas} | R Documentation |
Arabidopsis thaliana genotype data
Description
The genotype data of the Cvi-0 \times Col-0 Recombinant Inbred Line (RIL) population.
Usage
data(CviCol)Format
The format is a matrix containing 90 single-nucleotide polymorphism (SNP) markers for 367 individuals.
Details
The Arabidopsis thaliana genotype data is derived from a RIL cross between Columbia-0 (Col-0) and the Cape Verde Island (Cvi-0), where 367 individuals were genotyped for 90 genetic markers. This is a diploid population with three possible genotpe states (k = 3), where the genotypes coded as 0, 1, 2, where 0 and 2 represent the homozygous genotypes and 1 defines the heterozygous genotype.
This data set can be used to detect epistatic selection, short- and long- range linkage disequilibrium between 90 SNP markers.
Author(s)
Pariya Behrouzi and Ernst C. Wit
Maintainer: Pariya Behrouzi pariya.behrouzi@gmail.com
Source
Simon, M., et al. "QTL mapping in five new large RIL populations of Arabidopsis thaliana genotyped with consensus SNP markers." Genetics 178 (2008): 2253-2264. It is publicly available at http://publiclines.versailles.inra.fr/page/8
Examples
data(CviCol)
dim(CviCol)
head(CviCol, n=3)