The METASPACE platform hosts an engine for metabolite annotation of imaging mass spectrometry data as well as a spatial metabolite knowledgebase of the metabolites from thousands of public datasets provided by the community.
The METASPACE platform is developed by software engineers, data scientists and mass spectrometrists from the Alexandrov team at EMBL. This work is a part of the European project METASPACE.
Project | Description |
---|---|
engine | Contains a daemon that runs the metabolite annotation engine, and a REST API for sending jobs to the daemon |
graphql | A GraphQL API for accessing the annotations database and metabolite annotation engine |
webapp | A web application for submitting datasets and browsing results |
python-client | A Python library and set of example Jupyter notebooks for performing data analysis on the annotations database |
ansible | Ansible playbooks for deploying to AWS and Vagrant |
docker | Docker Compose configuration for making development and testing environments |
metadata | Imaging mass spectrometry metadata collected in METASPACE |
Please check the ansible project for production installations on AWS, and the docker project for development installations with Docker.
Please visit the help page of our web application running on AWS:
This project is funded from the European Horizon2020 project METASPACE (no. 634402), NIH NIDDK project KPMP and internal funds of the European Molecular Biology Laboratory.
METASPACE is tested with BrowserStack to ensure cross-browser compatibility. This service is provided for free under BrowserStack's Open Source plan.
METASPACE is hosted on Amazon Web Services with the support of AWS Cloud Credits for Research.
Unless specified otherwise in file headers or LICENSE files present in subdirectories, all files are licensed under the Apache 2.0 license.