Introduction to PhenoMeNal - phnmnl/phenomenal-h2020 GitHub Wiki
This tutorial is designed to provide an overview about PhenoMeNal and how it can be used for your research activities.
What is PhenoMeNal?
[PhenoMeNal (target site decommissioned)] (Phenome and Metabolome aNalysis) is a comprehensive and standardised e-infrastructure that supports data processing and analysis workflows for data generated by metabolomics studies. The infrastructure is generic and can be used for other ‘omics studies and non-clinical applications if needed.
Services provided by PhenoMeNal
Cloud Research Environment
The PhenoMeNal Cloud Research Environment (CRE) is a virtual computing infrastructure that can be installed, on demand, by anyone who has access to a cloud provider. You can follow our step-by-step procedure to install your CRE on the PhenoMeNal cloud, Amazon or Google Cloud via the [PhenoMeNal portal (target site decommissioned)]. Alternatively, the you can follow tutorials for the installation on public/private clouds using command-line.
PhenoMeNal App Library
The [PhenoMeNal App Library (target site decommissioned)] is the service catalogue and provides access to popular analysis tools such as XCMS, rNMR, IPO, Workflow4Metabolomics and MetFrag amongst many others tools in metabolomics. All the listed tools are available via [Galaxy workflows (target site decommissioned)] or Jupyter libraries through the Cloud Research Environment.
User support and training
PhenoMeNal offers [training and support (target site decommissioned)] to users and explicitly encourages feedback and contributions from the community. The cloud-based infrastructure for metabolomics and phenomics data processing and analysis has a global scope and is not limited to Europe. Simple user feedback can be provided via the [PhenoMeNal help desk (target site decommissioned)] while active participation in the development can be channelled through the PhenoMeNal GitHub pages.
How can PhenoMeNal help with your research?
- PhenoMeNal aims to bridge that technical gap by providing an automatic way of setting up a plethora of metabolomics software. It allows users with no programming experience to put many of these tools together in pipelines, through a proven workflow environment (Galaxy) that has been used successfully in other fields of life sciences for more than 10 years now.
- Provides a scalable infrastructure which helps the user to abstract the complexity of setting up a computer cluster, networks, security, etc. In essence, you get your own cluster with the software you need preinstalled to do metabolomics data analysis.
PhenoMeNal help and support
[For feedback and help (target site decommissioned)]