MHASS: Microbiome HiFi Amplicon Sequencing Simulator.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 41351823.
- Also identified by DOI 10.1093/bioinformatics/btaf656 and PMC identifier 12790812.
- 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
Microbiome HiFi Amplicon Sequence Simulator (MHASS) creates realistic synthetic PacBio HiFi amplicon sequencing datasets for microbiome studies, by integrating genome-aware abundance modeling, realistic dual-barcoding strategies, and empirically derived pass-number distributions from actual sequencing runs. MHASS generates datasets tailored for rigorous benchmarking and validation of long-read microbiome analysis workflows, including ASV clustering and taxonomic assignment. Implemented in Python with automated dependency management, the source code for MHASS is freely available at https://github.com/rhowardstone/MHASS along with installation instructions. Our code is also published on Zenodo at https://doi.org/10.5281/zenodo.17486364. The data underlying this article are available on GitHub at https://github.com/rhowardstone/MHASS_evaluation/.
Medical subject headings
- Software
- Microbiota
- High-Throughput Nucleotide Sequencing
- Sequence Analysis, DNA