Workflow4Metabolomics 3.0

Welcome to the collaborative portal dedicated to metabolomics data processing, analysis and annotation for Metabolomics community.

Follow us on Twitter  @workflow4metabo

Save the date! Analyze your data with Galaxy and the Workflow4metabolomics e-infrastructure! The next Workflow4Experimenters international course (W4E2020) will take place in Brussels - Belgium (Monday 3th to Friday Febrary 7th 2020). During this one-week course (entirely in English), you will learn how to use the W4M infrastructure and analyze your own LC-MS, GC-MS, or NMR data. Morning sessions will be dedicated to methodology and tools. Afternoon sessions will be devoted to tutoring.

Agenda and Pre-Registration (Closing the 3rd of November, 2019 !!!)

 

      @w4m

Tools and workflows on W4M.

Archives : 2016 W4E course at CNRS, Roscoff, 2017 W4E course at Pasteur, Paris and 2018 W4E course at Pasteur, Paris.

In the context of collaboration between metabolomics (MetaboHUB French infrastructure) and bioinformatics platforms (IFB: Institut Français de Bioinformatique), we have developed full LC/MS, FIA-MS, GC/MS and NMR pipelines using Galaxy framework for data analysis including preprocessing, normalization, quality control, statistical analysis (Univariate, Multivariate PLS/OPLS) and annotation steps. Those modular and extensible workflows are composed with existing components (XCMS and CAMERA packages, etc.) but also a whole suite of complementary homemade tools. This implementation is accessible through a web interface, which guarantees the parameters completeness. The advanced features of Galaxy have made possible the integration of components from different sources and of different types. Thus, an extensible Virtual Research Environment (VRE) is offered to metabolomics communities (platforms, end users, etc.), and enables preconfigured workflows sharing for new users, but also experts in the field.

Publications :
Giacomoni F., Le Corguillé G., Monsoor M., Landi M., Pericard P., Pétéra M., Duperier C., Tremblay-Franco M., Martin J.-F., Jacob D., Goulitquer S., Thévenot E.A. and Caron C. (2014). Workflow4Metabolomics: A collaborative research infrastructure for computational metabolomics. Bioinformatics, http://dx.doi.org/10.1093/bioinformatics/btu813

Guitton Y., Tremblay-Franco M., Le Corguillé G., Martin J.F., Pétéra M., Roger-Mele P., Delabrière A., Goulitquer S., Monsoor M., Duperier C., Canlet C., Servien R., Tardivel P., Caron C., Giacomoni F., Thévenot E.A., Create, run, share, publish, and reference your LC–MS, FIA–MS, GC–MS, and NMR data analysis workflows with the Workflow4Metabolomics 3.0 Galaxy online infrastructure for metabolomics, The International Journal of Biochemistry & Cell Biology, 2017, ISSN 1357-2725, http://dx.doi.org/10.1016/j.biocel.2017.07.002. This paper is also available on the open archive HAL.

 

We thank genotoul bioinformatics platform for computing/storage resources and webhmia team for web portal hosting.