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To identify the key needs of the clinicians from metabolomics point of view, PhenoMeNal has established a working group involving clinical metabolomics practitioners and members from the consortium. This working group will contribute views and suggestions on the kind and/or specifics of computational services needed to support the transition of metabolomics from clinical research towards clinical practice including advise…
The PhenoMeNal Cloud Research Environment (CRE) portal provides an entry point to analysis tools via its open source "App Library" (Application Library) - a service catalogue of all applications (currently 24) that are currently available via Galaxy workflows through the CRE.  Each tool, available in the form of Docker container,  carries a tool description, usage instructions to be…
“A microservices architecture puts each element of functionality into a separate service” - in a presentation during the session “Emerging Methods and Practice”, at the OpenTox Euro 2016 conference, PhenoMeNal partner and work package leader, Ola Spjuth, talks about his work on microservices , Virtual research environments (VRE) and their implications including VRE’s in PhenoMeNal infrastructure. Interoperability and…
"Metabolic profiling can help us keep better track of individual health risks" - PhenoMeNal partner and work package leader, Prof Thomas Hankemeier talks about metabolomics, data privacy and sharing in his interview for the Leiden Centre of Data Science. To read more click here.
26th - 28th October 2016, Berlin. Are you participating in the 1st Conference of the European Association of Systems Medicine, Berlin? Listen to Marta Cascante from University of Barcelona, talk about metabolomic analysis and role of PhenoMeNal. For agenda and details, click here.    
PhenoMeNal has commissioned a survey to collect information on computational and storage requirements, as well as on some aspects of software usage for infrastructures managing metabolomics data. This information will help us  to produce an infrastructure that provides tools effectively useful to the community. We would be grateful if you could contribute to the survey by clicking on…
PhenoMeNal is participating as a panelist in the session on Virtual Research Environments (VRE) for the Open Science Cloud at the Digital Infrastructures for Research (DI4R2016), 28-30 September 2016, Krákow Poland. Organised by the BlueBRIDGE project, the session will include some lightning talks and discussions on the VRE sector.
The PhenoMeNal consortium together with experts from the Metabolomics community Prof. Mark Viant, Ralf Weber and Warwick Dunn is hosting a workshop on Computational Workflows and Workflow Engines at the 12th Annual Conference of the Metabolomics Society, June 27-30, 2016 in Dublin. The session includes a series of talks on platforms such as Workflow4Metabolomics, MassCascade-KNIME, Galaxy-M, MetaboAnalyst, PhenoMeNal and MetaSpace followed by discussions on the current…
One of the main routes to mzML-formatted data is using Open Source converter msconvert. It can convert to mzML from most of the vendor formats. In PhenoMeNal, we have now succeeded to package msconvert in a Docker container and execute it in the WINE environment (“Run Windows applications on Linux, BSD, Solaris and Mac OS…
Thursday 12th May 2016, Uppsala. Our partners in Uppsala are organizing a focused discussion and workshop on microservices at Science for Life Laboratory, Uppsala University. Speakers include Steven Borrelli, who is a core committer and architect of MANTL, along with Giacinto Donvito, who is lead developer for INDIGO Datacloud ; Marco Capuccini will present the PhenoMeNal…