rice44kPCA {TSDFGS}R Documentation

44k genome rice data

Description

This data set was provided by Zhao et al. (2011) <DOI:10.1038/ncomms1467> which genotyping 44,100 SNP variants across 413 diverse accessions of O. sativa from 82 countries. We converted the genomic information into a PC matrix.

Usage

data("rice44kPCA")

Format

geno

A numeric matrix of principal components

subpop

A character vector of subpopulation's group name.

Source

http://www.ricediversity.org/data/index.cfm

References

Keyan Zhao, Chih-Wei Tung, Georgia C. Eizenga, Mark H. Wright, M. Liakat Ali, Adam H. Price, Gareth J. Norton, M. Rafiqul Islam, Andy Reynolds, Jason Mezey, Anna M. McClung, Carlos D. Bustamante & Susan R. McCouch (2011). Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nat Comm 2:467 | DOI: 10.1038/ncomms1467, Published Online 13 Sep 2011.

Examples

data("rice44kPCA")

[Package TSDFGS version 1.0 Index]