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2022-05-02

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cc-by-nc (c) Bayarri, Genís et al., 2022
Si us plau utilitzeu sempre aquest identificador per citar o enllaçar aquest document: https://hdl.handle.net/2445/189875

BioExcel Building Blocks Workflows (BioBB-Wfs), an integrated web-based plartform for biomolecular simulations.

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Recurs relacionat

https://doi.org/10.1093/nar/gkac380

Resum

We present BioExcel Building Blocks Workflows, a web-based graphical user interface (GUI) offering access to a collection of transversal pre-configured biomolecular simulation workflows assembled with the BioExcel Building Blocks library. Available workflows include Molecular Dynamics setup, protein-ligand docking, trajectory analyses and small molecule parameterization. Workflows can be launched in the platform or downloaded to be run in the users' own premises. Remote launching of long executions to user's available High-Performance computers is possible, only requiring configuration of the appropriate access credentials. The web-based graphical user interface offers a high level of interactivity, with integration with the NGL viewer to visualize and check 3D structures, MDsrv to visualize trajectories, and Plotly to explore 2D plots. The server requires no login but is recommended to store the users' projects and manage sensitive information such as remote credentials. Private projects can be made public and shared with colleagues with a simple URL. The tool will help biomolecular simulation users with the most common and repetitive processes by means of a very intuitive and interactive graphical user interface. The server is accessible at https://mmb.irbbarcelona.org/biobb-wfs.

Matèries

Interfícies gràfiques d'usuari (Informàtica), Cicle de treball, Biologia molecular

Matèries (anglès)

Graphical user interfaces (Computer systems), Workflow, Molecular biology

Citació

Col·leccions

Articles publicats en revistes (Bioquímica i Biomedicina Molecular)
<b>Publicacions de projectes de recerca finançats per la UE</b>

Citació

BAYARRI, Genís, ANDRIO, Pau, HOSPITAL GASCH, Adam, OROZCO LÓPEZ, Modesto, GELPI BUCHACA, Josep lluís. BioExcel Building Blocks Workflows (BioBB-Wfs), an integrated web-based plartform for biomolecular simulations.. _Nucleic Acids Research_. 2022. Vol. 50, núm. W1, pàgs. W99-W107. [consulta: 9 de gener de 2026]. ISSN: 0305-1048. [Disponible a: https://hdl.handle.net/2445/189875]

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