MuGVRE. A virtual research environment for 3D/4D genomics
| Autor: | Satish Sati, Genís Bayarri, François Serra, Giacomo Cavalli, Javier Conejero, Marco Pasi, Charles A. Laughton, Laia Codó, McDowall, Diana Buitrago, Dmitry Repchevsky, Juan Fernández-Recio, Marti-Renom M, David Castillo, Josep Ll. Gelpi, Mike N. Goodstadt, Reham F, Isabelle Brun-Heath, Rosa M. Badia, Andrew D. Yates, Meletiou A, Javier Álvarez Cid-Fuentes, Ricard Illa, Jürgen Walther, Alcantara Ja, Modesto Orozco, Romina Royo, Brian Jiménez-García |
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| Rok vydání: | 2019 |
| Předmět: |
0303 health sciences
business.industry Computer science Interoperability Cloud computing Genomics DNA sequencing Virtual research environment Metadata 03 medical and health sciences 0302 clinical medicine Workflow Programming paradigm Software engineering business 030217 neurology & neurosurgery 030304 developmental biology |
| Popis: | Multiscale Genomics (MuG) Virtual Research Environment (MuGVRE) is a cloud-based computational infrastructure created to support the deployment of software tools addressing the various levels of analysis in 3D/4D genomics. Integrated tools tackle needs ranging from high computationally demanding applications (e.g. molecular dynamics simulations) to high-throughput data analysis applications (like the processing of next generation sequencing). The MuG Infrastructure is based on openNebula cloud systems implemented at the Institute for research in Biomedicine, and the Barcelona Supercomputing Center, and has specific interfaces for users and developers. Interoperability of the tools included in MuGVRE is maintained through a rich set of metadata allowing the system to associate tools and data in a transparent manner. Execution scheduling is based in a traditional queueing system to handle demand peaks in applications of fixed needs, and an elastic and multi-scale programming model (pyCOMPSs, controlled by the PMES scheduler), for complex workflows requiring distributed or multi-scale executions schemes. MuGVRE is available athttps://vre.multiscalegenomics.euand documentation and general information athttps://www.multiscalegenomics.eu. The infrastructure is open and freely accessible. |
| Databáze: | OpenAIRE |
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