metaboData

Introduction

A repository with a few public metabolomics datasets borrowed from different public open sources.

While we don't come out with a better option the repository will be "folder-based". That is:

• Each dataset is contained in a sub-folder opf the "datasets" folder named with a short-descriptive name with no spaces and no special codes.
• Each folder contains a "description.md" document, written in markdown with information about the dataset.
• Eventually a template will be provided to fill the description.

The spreadsheet DataC_atalog.xls is an attempyt to provide a quick description of each dataset

Some public sources of open data

• MetaboLights is a database for Metabolomics experiments and derived information

• Metabolomics workbench

• MetabolomeXchange

• The gut microbiome-metabolome dataset collection: a curated resource for integrative meta-analysis. Access to data through this link

Software for acquiring / analyzing metabolomics data data

• Bioconductor: metabolomicsWorkbenchR package

References

• The Bioconductor metaRbolomics Toolbox A review of R/Bioc packages for managing and analyzing metabolomics data

• Global open data management in metabolomics