FASTmrMLM: To perform GWAS with FASTmrMLM method

Description Usage Arguments Author(s) Examples

Description

FAST multi-locus random-SNP-effect Mixed Linear Model

Usage

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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, Li Pei, Ren Wen-Long, Ni Yuan-Li, Zhang Yuan-Ming
Maintainer: Yuan-Ming Zhang<[email protected]>

Examples

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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)   

mrMLM documentation built on May 2, 2019, 8:17 a.m.