Metabomatching

Metabomatching is a procedure to identify compounds from spectral features that jointly associate with genotypes.

Software

The simplest method to run metabomatching is to use the metabomatching docker image. With a working docker installation (get docker), run

docker pull metabomatching/metabomatching-pre

to download the metabomatching container. The download may take some time, as the container includes a full Linux OS, octave to run metabomatching, and inkscape to convert metabomatching figures from SVG to PDF. To run metabomatching on the included sample pseudospectrum, run

docker run -i -v <absolute path to results directory>:/mm-ps metabomatching/metabomatching-pre

which will run metabomatching, and write results to <absolute path to results directory>. To run metabomatching on your own pseudospectra, please refer to the documentation. For a system running either Matlab or octave, metabomatching can also be obtained from GitHub

https://github.com/rrueedi/metabomatching-pre.git

Examples

The procedure was in applied in

• the metabolome-genome wide association study in the CoLaus cohort PLoS Genetics 2014, 10(2): e1004132
• the metabolome-genome wide association study in the SHIP cohort PLoS Genet 11(9): e1005487

For inquiries please contact Sven Bergmann.

Questions, Comments

contact metabomatching(at)unil(dot)ch