Kim D. Pruitt

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.

FCS-GX, a hashed k-mer cross-species aligner with a 709 Gbp curated database, screens most genomes in 0.1-10 minutes and flagged 36.8 Gbp of contamination in GenBank.

The paper introduces a new visualization tool, CGV, for analyzing whole genome alignments across species, enabling exploration of structural differences and gene annotations.

This paper evaluates GRCh38 and de novo haploid assemblies, finding that GRCh38 remains superior for complex genomic regions and coding sequences despite improvements in newer assemblies.