GWAS包使用
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rrBLUP
可用于genomic selection基因组选择和association mapping关联映射rrBLUP包中的核心函数:1.mixed.solve把标记效应建模为随机效应或把行数据的基因型(genotypic)值用于A.mat函数(计算加性关系矩阵,预测育种值)2.kinship.BLUP:包含上位效应在基因型值预测中3.GWA:关联映射 处理缺失的数据:原创 2013-02-01 15:48:24 · 6125 阅读 · 0 评论 -
QTLRel Package: functionalities (3)
17. nullSim: Simulate null distributionSimulate distribution under the hypothesis of no QTL by permutation (of genotypic data) or gene dropping.Two methods considered here are permutation test and原创 2013-03-11 11:21:48 · 1061 阅读 · 0 评论 -
QTLRel Package: functionalities (2)
9. gls: Generalized Least Square Estimates, Obtain estimates using generalized least squares (gls)10. hapSim: Generate Genotypic Data, Simulate gametic data from a pedigree.The pedigree should原创 2013-03-11 10:49:34 · 809 阅读 · 0 评论 -
QTLRel Package: functionalities (1)
QTLRel: Tools for mapping of quantitative traits of genetically related individuals and calculating identity coefficients from a pedigree.This software provides tools for quantitative trait mapp原创 2013-03-08 16:35:25 · 822 阅读 · 0 评论 -
Synbreed与rrBLUP
Synbreed中的RRBLUP模型(用函数gpMod实现)与rrBLUP包中的kin.blup:若使用同一个数据集,同一个relationship矩阵,则得出的结果相近。区别:1.gpMod中使用的kin矩阵为kin.blup中kin矩阵的一半。2.kin.blup结果中的Vg为gpMod结果中fit的分量sigma的第一个值kinTS的1000倍。Vg:遗传方差Ve:剩余方原创 2013-05-01 17:19:34 · 3360 阅读 · 0 评论