process_mQTL: mQTL mapping
In mQTL: Metabolomic Quantitative Trait Locus Mapping

Description Usage Arguments Details Value Author(s) References See Also Examples

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

1	process_mQTL(datfile, genfile, nperm = 0)

`datfile`	phenotype data
`genfile`	genotype data
`nperm`	`nperm`

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.

2D LOD score table

Jean-Baptiste Cazier and Hedjazi Lyamine

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

post_mQTL

  ## 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))

## End(Not run)