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Bioinformatics. 2015 May 1;31(9):1493-5. doi: 10.1093/bioinformatics/btu813. Epub 2014 Dec 19.

Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics.

Author information

1
INRA, UMR 1019, PFEM, 63122 Saint Genes Champanelle, CNRS, UPMC, FR2424, ABiMS, Station Biologique, 29680 Roscoff, INRA, UMR 1331, PF MetaToul-AXIOM, Toxalim, F-31027 Toulouse, INRA, Metabolome Facility of Bordeaux Functional Genomics Center, IBVM, 33140 Villenave d'Ornon and CEA, LIST, Laboratory for Data Analysis and Smart Systems (LADIS), MetaboHUB Paris, F-91191 Gif-sur-Yvette, France.

Abstract

SUMMARY:

The complex, rapidly evolving field of computational metabolomics calls for collaborative infrastructures where the large volume of new algorithms for data pre-processing, statistical analysis and annotation can be readily integrated whatever the language, evaluated on reference datasets and chained to build ad hoc workflows for users. We have developed Workflow4Metabolomics (W4M), the first fully open-source and collaborative online platform for computational metabolomics. W4M is a virtual research environment built upon the Galaxy web-based platform technology. It enables ergonomic integration, exchange and running of individual modules and workflows. Alternatively, the whole W4M framework and computational tools can be downloaded as a virtual machine for local installation.

AVAILABILITY AND IMPLEMENTATION:

http://workflow4metabolomics.org homepage enables users to open a private account and access the infrastructure. W4M is developed and maintained by the French Bioinformatics Institute (IFB) and the French Metabolomics and Fluxomics Infrastructure (MetaboHUB).

CONTACT:

contact@workflow4metabolomics.org.

PMID:
25527831
PMCID:
PMC4410648
DOI:
10.1093/bioinformatics/btu813
[Indexed for MEDLINE]
Free PMC Article

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