When you want to get to know and love your data

Tutorials- Statistical and Multivariate Analysis for Metabolomics

2014 winter LC-MS stats courseI recently had the pleasure in participating in the 2014 WCMC Statistics for Metabolomics Short Course. The course was hosted by the NIH West Coast Metabolomics Center and focused on statistical and multivariate strategies for metabolomic data analysis. A variety of topics were covered using 8 hands on tutorials which focused on:

  • data quality overview
  • statistical and power analysis
  • clustering
  • principal components analysis (PCA)
  • partial least squares (O-/PLS/-DA)
  • metabolite enrichment analysis
  • biochemical and structural similarity network construction
  • network mapping

I am happy to have taught the course using all open source software, including: R, and Cytoscape. The data analysis and visualization were done using Shiny-based apps:  DeviumWeb and MetaMapR. Check out some of the slides below or download all the class material and try it out for yourself.

Creative Commons License
2014 WCMC LC-MS Data Processing and Statistics for Metabolomics by Dmitry Grapov is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.

Special thanks to the developers of Shiny and Radiant by Vincent Nijs.

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3 responses

  1. Pingback: Tutorials- Statistical and Multivariate Analysis for Metabolomics | Patient 2 Earn

  2. Titan

    I tried to learn the course downloading all the materials provided in the link above. I tried to run app for DeviamWeb but could not run it. It says “Error in shiny appdir (X). Shiny app could not be found in the folder”.
    I have not changed anything just tried to run according to the instruction provided. Can you please help me what went wrong.

    Thank you.

    January 9, 2015 at 8:58 pm

    • You need to change the file path in the statement ‘runApp(‘~/DeviumWeb’)’ to where the shiny app is on your computer (e.g. change the ~ above to your/file/path).

      For an example, take a look at the DeviumWeb website (https://github.com/dgrapov/DeviumWeb) for instructions on how to start the app if downloaded to desktop.

      January 11, 2015 at 8:06 pm

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