David A. Yarmosh

This study evaluates the impact of sequencing technologies and bioinformatic protocols on SARS-CoV-2 variant calling and introduces standardized parameters to improve pipeline consistency.

The paper compares 1,113 bacterial genome assemblies from authenticated sources with those in RefSeq, highlighting issues in metadata, traceability, and assembly quality.

PanGIA is a metagenomics analysis platform designed for pathogen detection and microbial community profiling, offering improved accuracy and usability for non-expert users.

Vorpal constructs interpretable linear models using clustered degenerate K-mers to predict binary phenotypes in RNA viruses, demonstrating its utility in three virus clades.