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/my/directory>:/mm-ps metabomatching/metabomatching-pre
  which will run metabomatching, and write results to <absolute/path/to/my/directory>. Note that on Windows, the absolute path must be formatted without using a colon, so to use the directory C:\MyDir, the path must be formatted as //c/MyDir,

• To run metabomatching on your own pseudospectra, please refer to the documentation (PDF).

• To run metabomatching directly, on 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-wide genome-wide association study in the CoLaus cohort PLOS Genet, 10(2): e1004132
• the metabolome-wide genome-wide association study in the SHIP cohort PLOS Genet 11(9): e1005487

Questions, Comments

contact metabomatching(at)unil(dot)ch