FASTmrMLM {mrMLM} | R Documentation |
To perform GWAS with FASTmrMLM method
Description
FAST multi-locus random-SNP-effect Mixed Linear Model
Usage
FASTmrMLM(gen,phe,outATCG,genRaw,kk,psmatrix,svpal,svrad,svmlod,Genformat,CLO)
Arguments
gen |
genotype matrix. |
phe |
phenotype matrix. |
outATCG |
genotype for code 1. |
genRaw |
raw genotype. |
kk |
kinship matrix. |
psmatrix |
population structure matrix. |
svpal |
Critical P-value for selecting variable. |
svrad |
Search Radius in search of potentially associated QTN. |
svmlod |
Critical LOD score for significant QTN. |
Genformat |
Format for genotypic codes. |
CLO |
number of CPU. |
Author(s)
Zhang Ya-Wen, Wang Jing-Tian, Li Pei, Zhang Yuan-Ming
Maintainer: Yuan-Ming Zhang<soyzhang@mail.hzau.edu.cn>
Examples
G1=data(Gen)
P1=data(Phe)
Readraw=ReadData(fileGen=Gen,filePhe=Phe,fileKin=NULL,filePS =NULL,
Genformat=1)
InputData=inputData(readraw=Readraw,Genformat=1,method="FASTmrMLM",trait=1)
result=FASTmrMLM(InputData$doMR$gen,InputData$doMR$phe,
InputData$doMR$outATCG,InputData$doMR$genRaw,
InputData$doMR$kk,InputData$doMR$psmatrix,0.01,svrad=20,
svmlod=3,Genformat=1,CLO=1)
[Package mrMLM version 5.0.1 Index]