Gary Van Domselaar

The paper quantifies bias in proportionality-based association metrics for count data and proposes a logit-normal multinomial model to improve accuracy.

VIRUS-MVP tracks viral mutations and their functional impacts across multiple viruses, providing tools for analysis and visualization.

BioHansel rapidly and accurately genotypes bacterial pathogens from WGS data using canonical SNPs, enabling efficient surveillance and outbreak response.

quasitools provides open-source tools for analyzing viral quasispecies data, including consensus sequence creation, variant calling, complexity calculation, and genetic distance measurement.

A decentralized open-source web platform lets public health labs run outbreak sequencing pipelines on local compute, keeping data under their own governance while still exchanging results between instances.

Neptune identifies differentially abundant genomic loci in bacterial populations using k-mer matching and probabilistic models, showing sensitivity and specificity on simulated and real data.

SNVPhyl is a phylogenomics pipeline that identifies SNVs and constructs whole-genome phylogenies from WGS data, showing high sensitivity and specificity in outbreak detection.

Plasmid Profiler is a pipeline for comparative analysis of plasmid content in WGS data without requiring de novo assembly, using read mapping to a plasmid reference database.