mQTL (version 1.0)

process_mQTL: mQTL mapping

Description

Function to process the tissue extract of the individuals for QTL analysis

Usage

process_mQTL(datfile, genfile, nperm = 0)

Arguments

datfile

phenotype data

genfile

genotype data

nperm

nperm

Value

2D LOD score table

Details

This function makes use of metabolomic and genotype data to perform QTL analysis based on the R/QTL package, for mapping quantitative trait loci. In particular, it makes use of the extended Haley-Knott method to optimize the LOD score evaluation and avoid problems with missing genotypes.

References

Broman,K., et al (2006) R/qtl: QTL mapping in experimental crosses, Bioinformatics, 19(7), 889-890.

See Also

post_mQTL

Examples

# NOT RUN {
  
# }
# NOT RUN {
## Pre-process data 
    infile<-"ReducedData.dat" ## Reduced data by SRV
    cleangen<-"CleanGenoFile.dat" ## Genotype data file in csvs format
    nperm <- 0 ## Number of permutations
    MQTL_results<-process_mQTL(infile, cleangen, nperm))
# }