mQTL: Metabolomic Quantitative Trait Locus Mapping

mQTL provides a complete QTL analysis pipeline for metabolomic data. Distinctive features include normalisation using PQN approach, peak alignment using RSPA approach, dimensionality reduction using SRV approach and finally QTL mapping using R/qtl package.

Author
Lyamine Hedjazi and Jean-Baptiste Cazier
Date of publication
2013-10-21 12:44:23
Maintainer
Lyamine Hedjazi <l.hedjazi@fondation-ican.com>
License
GPL
Version
1.0

View on CRAN

Man pages

align_mQTL
Peak alignement and normalisation of metabolomic data
alignSp
Base function for Spectrum Alignment
attachSegments
Concatenation of test and reference segments
format_mQTL
Routine to reformat the data into the required format
matchSegments
Matching of the segment of interest to the corresponding...
mQTL-package
Metabolomic Quantitative Trait Locus mapping
normalise
Normalisation of metabolomic data
peakPeaks
Peak picking algorithm
post_mQTL
Plot top LOD results
ppersp
Plot a 3-D profile of LODs
pplot
Plot a color scale layer
pre_mQTL
Statistical Recoupling of variables for mQTL analysis
process_mQTL
mQTL mapping
segmentateSp
Segmentation of a spectrum of interest
selectRefSp
Automated selection of a reference spectrum
sgolay
Find the matrix of differentiation filters
sgolayDeriv
Calculate smoothed derivates
SRV
Statistical Recoupling of Variables
SRV_Corr
Statistical recoupling of variables in a supervised context
summary_mQTL
Function to summarize the results of a all the runs and their...

Files in this package

mQTL
mQTL/NAMESPACE
mQTL/R
mQTL/R/mQTL.R
mQTL/MD5
mQTL/DESCRIPTION
mQTL/man
mQTL/man/pre_mQTL.Rd
mQTL/man/alignSp.Rd
mQTL/man/mQTL-package.Rd
mQTL/man/pplot.Rd
mQTL/man/segmentateSp.Rd
mQTL/man/summary_mQTL.Rd
mQTL/man/matchSegments.Rd
mQTL/man/process_mQTL.Rd
mQTL/man/ppersp.Rd
mQTL/man/post_mQTL.Rd
mQTL/man/SRV_Corr.Rd
mQTL/man/normalise.Rd
mQTL/man/sgolay.Rd
mQTL/man/sgolayDeriv.Rd
mQTL/man/format_mQTL.Rd
mQTL/man/selectRefSp.Rd
mQTL/man/align_mQTL.Rd
mQTL/man/attachSegments.Rd
mQTL/man/SRV.Rd
mQTL/man/peakPeaks.Rd