Minutes of kick-off meeting – D1.3
This report presents the discussions and decisions made during the project kick-off meeting organised at EMBL-EBI, from 8-10 September 2015.
Bi-annual progress report – D1.4.1
This deliverable is a comprehensive report of the consortiums activities and performance towards meeting the objectives and goals of the project from M1-M6.
Bi-annual progress report – D1.4.2
This deliverable is a comprehensive report of the consortiums activities and performance towards meeting the objectives and goals of the project from M7-M12.
Bi-annual progress report – D1.4.3
This deliverable is a comprehensive report of the consortiums activities and performance towards meeting the objectives and goals of the project from M13-M18.
Data management plan – D1.5.1
This deliverable describes the initial data management plan for all the submitted and derived research data that will be generated with the PhenoMeNal infrastructure. Each dataset described in this deliverable includes data set description, standards and metadata, data sharing, ethical and legal compliance and data archiving.
Data management plan – D1.5.2
This deliverable describes the updated data management plan for all the submitted and derived research data that will be generated with the PhenoMeNal infrastructure including data security and data availability process in PhenoMeNal.
Report on mapping of e-infrastructures, users, investments for supporting policy developments in the field of metabolomics, biomarkers and biobanks – D2.1
This initial deliverable reports the mapping of all the European Strategy Forum on Research Infrastructures (ESFRIs) and e-infrastructures that are relevant to PhenoMeNal including academic and industrial users.
A first version of the sustainability plan – D2.2
This document presents our current insights in the sustainability for the PhenoMeNal infrastructure, including a) business model options for economic sustainability as well as b) the design choices and risk mitigation if any of the components fail to be sustainable, the technical sustainability.
Report of the annual stakeholder meeting – D3.1.1
This document provides a comprehensive report of the first annual stakeholder meeting held in June 2016. Stakeholders from diverse communities including industry, metabolomics laboratories, systems biology and bioethics were invited to discuss some of the pressing challenges faced by the biomedical community; handling of extreme data volumes in molecular phenotyping, analysis of metabolomics data sets in conjunction with the genomic data, transmission of these large datasets in convenient time frames between institutions and data privacy and ethics.
Web-based Tutorial release 1 about “Metabolomics Data Deposition and Analysis through PhenoMeNal”, in the form of video clips – D3.3.1
This deliverable provides information about the tutorials that have been developed to explain data analysis using the PhenoMeNal infrastructure.
Report on requirements for relevant research centres producing and/or consuming metabolomics data – D4.1
This deliverable summarises the requirements on various IT aspects expressed by research centres producing and/or consuming metabolomics (and other -omics) data. The document will be updated as more information is received.
Report describing the activity and output of working groups – D4.2
This deliverable reports on the implementation and activities of the working groups established as part of the work of the PhenoMeNal consortium and involving also participants in other biomedical infrastructures and research projects.
Build system with continuous integration, providing development snapshots of PhenoMeNal Virtual Machine Images – D5.1
This initial deliverable presents the setup, maintenance and security features of a shared Jenkins Instance for continuous integration in the PhenoMeNal project, as well as its place in the overall e-infrastructure.
A beta-version of PhenoMeNal integration VMI capable of the proof-of-concept integration with other VMIs – D5.2
This deliverable presents the PhenoMeNal VRE, which in the first 12 months of the project has reached proof-of-concept stage in terms of integration between components. We describe the architecture of the e-infrastructure, the workflow systems chosen, and case studies demonstrating the capabilities of integrating services.
User Experience Document on VRC Design Guide – D6.1
This document is a comprehensive report on the first user experience (UX) workshop hosted to ensure a user centric design and usability of the PhenoMeNal Virtual Research Environment (VRE), aka. Virtual Research Community (VRC).
PhenoMeNal VRC (static) portal publicly available – D6.2
This document describes the first version of the PhenoMeNal VRE portal. The VRE Portal will be the first entry point for the users to interact with PhenoMeNal, showcasing its capabilities, displaying the available analysis tools and allowing the users to automatically deploy the PhenoMeNal VRE infrastructure to cloud providers of their choice.
Online user feedback form – D6.3
User feedback in one of the most important ways to improve user satisfaction and ensure our offering is fit for purpose. With the integration of an automated ticketing system, we have a powerful tool to manage user requests.