Rice_Zhao_etal: Rice_Zhao_etal:

In RAINBOWR: Genome-Wide Association Study with SNP-Set Methods

Rice_Zhao_etal:

Description

A list containing the information of marker genotype of rice genome (Zhao et al., 2010; PLoS One 5(5): e10780) and phenotype data of rice field trial (Zhao et al., 2011; Nat Comm 2:467).

Usage

Rice_Zhao_etal

Format

A list of 4 data frames:

$genoScore

marker genotyope, Rice_geno_score

$genoMap

physical map, Rice_geno_map

$pheno

phenotype, Rice_pheno

$haploBlock

haplotype block, Rice_haplo_block

Details

Marker genotype and phenotype data of rice by Zhao et al., 2010.

Source

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

References

Zhao K, Wright M, Kimball J, Eizenga G, McClung A, Kovach M, Tyagi W, Ali ML, Tung CW, Reynolds A, Bustamante CD, McCouch SR (2010). Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome. PLoS One. 2010; 5(5): e10780. Zhao, K. et al. (2011) Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nat Commun. 2: 467. Purcell, S. and Chang, C. (2018). PLINK 1.9, www.cog-genomics.org/plink/1.9/. Chang CC, Chow CC, Tellier LCAM, Vattikuti S, Purcell SM, Lee JJ (2015) Second-generation PLINK: rising to the challenge of larger and richer datasets. GigaScience, 4. Gaunt T, Rodríguez S, Day I (2007) Cubic exact solutions for the estimation of pairwise haplotype frequencies: implications for linkage disequilibrium analyses and a web tool 'CubeX'. BMC Bioinformatics, 8. Taliun D, Gamper J, Pattaro C (2014) Efficient haplotype block recognition of very long and dense genetic sequences. BMC Bioinformatics, 15.

See Also

Rice_geno_score, Rice_geno_map, Rice_pheno, Rice_haplo_block

RAINBOWR documentation built on July 4, 2024, 1:11 a.m.