Selected work
Engineering and research, mostly where they overlap.
Clinical-grade genomic systems, the software that runs them, and a decade of computational biology and genomics research behind it.
Clinical platform · APL & University of Calgary
Clinical genomics pipelines & the apps around them
Alberta Precision Laboratories · Cumming School of Medicine
Development and maintenance of clinical-grade genome and exome workflows, plus the full-stack
software that makes their output usable. I engineer FastAPI + SvelteKit + Celery + Redis
applications for exploring sequencing quality metrics, apply statistical process control
(Levey–Jennings, outlier detection) for QA, and build automated pipelines such as a DPYD
pharmacogenomics workflow that determines diplotypes and generates EPIC-formatted clinical reports.
FastAPISvelteKitPostgreSQLCelery + RedisDRAGENSPC / QC
Rare disease genomics
TIGeR — genomics for rare disease diagnosis
Translational Implementation of Genomics for Rare Diseases
Designed, optimised, and ran production NGS pipelines over 800+ clinical whole-genome and exome
datasets on Linux HPC clusters and Illumina DRAGEN — validating CNV and structural-variant callers,
evaluating carrier-panel coverage, and assessing mitochondrial variant calling, in support of
diagnosing rare genetic disease in Albertans.
DRAGENHPC / SLURMCNV / SV validationCare4Rare
Genome assembly
Genome of an emerging Alberta parasite
Wasmuth Lab · University of Calgary
Led a multi-team project to sequence and assemble the genome of Myxobolus rasmusseni with
Oxford Nanopore long reads and its transcriptome with Illumina — producing one of the most
repetitive animal genomes described, and new resources for myxozoan biology.
NanoporeLong-read assemblyAnnotationPhylogenomics
Structural bioinformatics
Molecular mimicry in Plasmodium
Wasmuth Lab · University of Calgary
Built and validated a pipeline integrating AlphaFold structure prediction with proteome-wide
structural comparison (Foldseek, Dali) to find host–parasite interactions — discovering 41 novel
instances of molecular mimicry in the malaria parasite.
AlphaFoldFoldseek / DaliPythonProteomics
Comparative genomics · ML
MitoPredictor & the evolution of mtMutS
Lavrov Lab · Iowa State University
Doctoral and postdoctoral research on animal mitochondrial proteomes: a Random-Forest tool
(MitoPredictor) that infers mitochondrial localization, the companion MMPdb database, and a
phylogenomic study assembling 94 octocoral mitochondrial genomes to trace MutS-family DNA-repair evolution.
Random ForestR ShinyPhylogeneticsDatabases