FASTmrMLM {mrMLM}

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<[e-mail]>

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)