R: mQTL mapping

process_mQTL {mQTL} | R Documentation

## 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`

### 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.

### Value

2D LOD score table

### Author(s)

Jean-Baptiste Cazier and Hedjazi Lyamine

### 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:
    ## 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)

[Package mQTL version 1.0 Index]