Phylogenetic tree calculations using the Grid with DAG job
Raul Isea, Juan L. Chaves, Fernando Blanco, Rafael Mayo
TL;DR
This paper presents a method for performing molecular phylogenetic calculations on a computational Grid using DAG jobs with MrBayes, demonstrated through papillomavirus evolution analysis.
Contribution
It introduces a novel approach to implement phylogenetic calculations on a Grid using DAG jobs with MrBayes, enabling efficient parallel processing.
Findings
Successful calculation of papillomavirus evolution with 121 sequences
Demonstrated feasibility of DAG-based phylogenetic computations on Grid
Enhanced computational efficiency for molecular evolution studies
Abstract
The goal of the work is to implement molecular phylogenetic calculations using the Grid paradigm by means of the MrBayes software using Directed Acyclic Graphs (DAG) jobs. In this method, a set of jobs depends on the input or the output of other jobs. Once the runs have been successfully done, all the results can be collected by a specific Perl script inside the defined DAG job. For testing this methodology, we calculate the evolution of papillomavirus with 121 sequences.
Peer Reviews
No public reviews on file for this paper yet. If you reviewed it on a platform where reviews are public (OpenReview, ICLR, NeurIPS, ICML), you can paste yours below so the community can read it here.
Videos
No videos yet. Explain this paper in a talk, walkthrough, or lecture? Add one.
Taxonomy
TopicsGenomics and Phylogenetic Studies · Algorithms and Data Compression · Machine Learning in Bioinformatics