pre_mQTL: Statistical Recoupling of variables for mQTL analysis

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

Description

Makes use of SRV to preprocess metabolomic data for dimensionality reduction by statistical recoupling of variables

Usage

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pre_mQTL(infile, outfile, met, corrT = 0.9)

Arguments

infile

metabolomic datafile

outfile

reduced metabolomic datafile

met

used statistical summary

corrT

correlation threshold

Details

The SRV algorithm forms clusters of variables using a measure of a local spectral dependency. Then tests whether consecutive clusters are correlated to aggregate them into a single supercluster.

Value

The algorithm:

  1. variables are associated into a series of clusters.

  2. integration of clusters into superclusters.

Author(s)

Jean-Baptiste Cazier and Lyamine Hedjazi

References

Blaise,B. et al (2009) Statistical recoupling prior to significance testing in nuclear magnetic resonance based metabonomics, Anal. Chem., 81(15), 6242-6251.

See Also

SRV,post_mQTL

Examples

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  ## Not run: 
## Pre-process data 

    infile<-"AlignData.dat" ## Aligned metabolomic profiles in csvs format
    outfile<-"ReducedData.dat" ## Reduced data by SRV
    met<- "rectangle" ## Summary measure (mean, max,...)
    corrT<- 0.9 ## Correlation threshold (default 0.9)
    (pre_mQTL(infile, outfile, met, corrT)

## End(Not run)


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