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metaMS for Galaxy

install with bioconda Build Status

Our project

The Workflow4Metabolomics, W4M in short, is a French infrastructure offering software tool processing, analyzing and annotating metabolomics data. It is based on the Galaxy platform.

metaMS

MS-based metabolomics data processing and compound annotation pipeline.

Author: Ron Wehrens [aut, cre] (author of GC-MS part), Pietro Franceschi [aut] (author of LC-MS part), Nir Shahaf [ctb], Matthias Scholz [ctb], Georg Weingart [ctb] (development of GC-MS approach), Elisabete Carvalho [ctb] (testing and feedback of GC-MS pipeline)

Maintainer: Ron Wehrens <ron.wehrens at gmail.com>

Citation (from within R, enter citation("metaMS")):

Wehrens R, Weingart G and Mattivi F (2014). “metaMS: An open-source pipeline for GC-MS-based untargeted metabolomics.” J. Chrom. B, 966, pp. 109-116.

Homepage: https://github.com/Bioconductor-mirror/metaMS/

Galaxy

Galaxy is an open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.

Homepage: https://galaxyproject.org/

Dependencies using Conda

install with bioconda

Conda is package manager that among many other things can be used to manage Python packages.

#To install miniconda2
#http://conda.pydata.org/miniconda.html
#To install the metaMS R library using conda:
conda install bioconductor-metams bioconductor-xcms r-batch
#To set an environment:
conda create -n bioconductor-metams bioconductor-metams bioconductor-xcms r-batch
#To activate the environment:
. activate bioconductor-metams

Travis

Build Status

Test and Deploy with Confidence. Easily sync your GitHub projects with Travis CI and you'll be testing your code in minutes!

Test Status

Planemo test using conda: passed

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