Overview {MetaNetwork}R Documentation

MetaNetwork package

Description

MetaNetwork maps metabolite quantitative trait loci (mQTLs) underlying variation in metabolite abundance in individuals of a segregating population with a two-part model to account for the often observed spike in the distribution of metabolite data. MetaNetwork predicts and visualizes potential associations between metabolites using correlations of mQTL profiles, rather than of abundance profiles. Simulation and permutation procedures are used to assess statistical significance.

Note

To install MetaNetwork package:
Download the MetaNetwork package from: http://gbic.biol.rug.nl/supplementary/2007/MetaNetwork
(Windows/RGui) click 'Packages'; 'install package(s) from local zip files'; browse to the MetaNetwork zip file.

MetaNetwork requires the qvalue package for false discovery rate control:
(Windows/RGui) click 'Packages'; 'Install package(s)...'; select CRAN mirror; select qvalue.

The developers of MetaNetwork thank Gonzalo Vera, Bruno Tesson and Richard Scheltema for helping to develop this R-package, and Martijn Dijkstra and Rainer Breitling for helping to predict multiple peaks belonging to the same metabolite

Author(s)

Jingyuan Fu <j.fu@rug.nl>, Morris Swertz <m.a.swertz@rug.nl>, Joost Keurentjes <Joost.Keurentjes@wur.nl>, Ritsert Jansen <r.c.jansen@rug.nl>

References

Please cite publication below when reporting results produced using this package:
Fu J, Swertz MA, Keurentjes JJB, Jansen RC. MetaNetwork: a computational tool for the genetic study of metabolism. Nature Protocols (2007).


[Package MetaNetwork version 1.0-0 Index]