National Laboratory of Scientific Computing
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https://orcid.org/0000-0002-2151-7418I am a bioinformatician and phylogenetics. I really love working on problems at the intersection of high-performance computing and scientific workflows applied to omics
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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
Here we introduce a scientific workflow implementing several open-source software executed by Parsl parallel scripting language in an high-performance computing environment. We have applied the workflow to a single-cardiomyocyte RNA-seq data retrieved from Gene Expression Omnibus database. The workflow allows for the analysis (alignment, QC, sort and count reads, statistics generation) of raw RNA-seq data and seamless integration of differential expression results into a configurable script code. ...
Space: Independent Teams
Public web page: Not specified
