SEEK ID: https://workflowhub.eu/people/648
Location: Brazil
ORCID: https://orcid.org/0000-0002-3811-4527
Joined: 8th Jan 2024
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Web page: Not specified
In view of the complexity in modeling phylogenetic network experiments, the present work introduces a workflow for phylogenetic network analyses coupled to be executed in High-Performance Computing (HPC) environments. The workflow aims to integrate well-established software, pipelines and scripts, implementing a challenging task since these tools do not consistently profit from the HPC environment, leading to an increase in the expected makespan and idle computing resources.
Space: Independent Teams
Public web page: https://github.com/rafaelstjf/biocomp
Organisms: Not specified
Abstract (Expand)
Authors: Rafael Terra, Kary Ocaña, Carla Osthoff, Lucas Cruz, Philippe Navaux, Diego Carvalho
Date Published: 19th Oct 2022
Publication Type: InProceedings
DOI: 10.5753/wscad.2022.226366
Citation: Anais do XXIII Simpósio em Sistemas Computacionais de Alto Desempenho (WSCAD 2022),pp.73-84,Sociedade Brasileira de Computação
Abstract (Expand)
Authors: Rafael Terra, Kary Ocaña, Carla Osthoff, Diego Carvalho
Date Published: 18th Feb 2022
Publication Type: Master's Thesis
Citation: TERRA, R. S. Framework para execução de workflows de redes filogenéticas em ambientes de computação de alto desempenho. 2022. 71 f. Tese. (Programa de Pós-Graduação em Modelagem Computacional) - Laboratório Nacional de Computação Científica, Petrópolis, 2022.
Abstract (Expand)
Authors: Rafael Terra, Micaella Coelho, Lucas Cruz, Marco Garcia-Zapata, Luiz Gadelha, Carla Osthoff, Diego Carvalho, Kary Ocaña
Date Published: 18th Jul 2021
Publication Type: InProceedings
DOI: 10.5753/bresci.2021.15788
Citation: Anais do XV Brazilian e-Science Workshop (BRESCI 2021),pp.49-56,Sociedade Brasileira de Computação
Framework for construction of phylogenetic networks on High Performance Computing (HPC) environment
Introduction
Phylogeny refers to the evolutionary history and relationship between biological lineages related by common descent. Reticulate evolution refers to the origination of lineages through the complete or partial merging of ancestor lineages. Networks may be used to represent lineage independence events in non-treelike phylogenetic processes.
The methodology for reconstructing networks ...