Coordinated Meta-Storms enables comparison of million-level microbiomes.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 40758451.
- Also identified by DOI 10.1093/bioinformatics/btaf438 and PMC identifier 12342987.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
Phylogeny-based distance serves as the foundation in the evaluation of microbiome beta diversity. However, the exponential growth of data volume has recently introduced substantial computational challenges, while current methods remain limited in their scalability and efficiency. To solve these issues, we introduce Coordinated Meta-Storms (CMS), a novel approach for large-scale microbiome phylogeny-based distance calculation. CMS incorporates a dynamic multiple Graphics Processing Unit architecture based on a self-adaptive data decomposition strategy and optimization, which empowers pairwise comparison of million-level microbiomes within 40 h on a single computing node. Coordinated Meta-Storms is implemented by CUDA, HIP and C++. Source code is available at GitHub (https://github.com/qdu-bioinfo/Coordinated-Meta-Storms) and has been published on Zenodo (DOI: 10.5281/zenodo.15802999).
Medical subject headings
- Microbiota
- Software
- Computational Biology