Genomics Software Developer · Bioinformatician · Scientific Software Engineer

I build reliable software for public-health genomics: production Nextflow workflows, Python services, validated analysis systems, data platforms, and secure AWS infrastructure. My work sits at the boundary between biological reasoning and the engineering required to make an analysis reproducible, auditable, and useful in routine operations.

Portfolio · LinkedIn

• Influenza mutation surveillance — Sole architect and principal developer of a production analysis platform spanning Python and Nextflow. Independent validation reached an all-SNV F1 of 0.9915 across 192 samples and all eight influenza segments.
• Secure sequence submission on AWS — Sole architect and developer of a serverless transfer service using short-lived identity, write-only tenant isolation, immutable uploads, confirm-before-expiry lifecycle controls, and durable PostgreSQL audit records.
• Public-health workflow automation — Led and contributed to validated, dependency-aware pathogen-genomics workflows, result aggregation, database integration, and unattended analysis on shared HPC infrastructure.

These systems include both solely authored work and shared organizational codebases. Project descriptions identify my role explicitly; links to shared work point to the maintained upstream repository.

• BCCDC-PHL/fluviewer-nf — influenza whole-genome analysis, clade assignment, genotyping, mutation reporting, provenance, and workflow validation.
• BCCDC-PHL/noro-typing-nf — automated norovirus assembly, typing, and phylogenetic analysis.
• BCCDC-PHL/auto-hcv — automated genomic analysis and operational file-transfer workflows for HCV data.

• pyslurm — a typed Python interface for submitting and monitoring SLURM job arrays through Meta's submitit.
• agent-skills — reusable agent skills for Nextflow, Python data work, visualization, and dashboards.

• Scientific software: Python, Nextflow DSL2, Bash, R, Biopython, pandas, Polars, scikit-learn
• Workflow and HPC: SLURM, submitit, Apptainer/Singularity, Docker, Conda, GitHub Actions
• Data and services: PostgreSQL, SQLite, SQLAlchemy, Alembic, FastAPI, Pydantic, React, TypeScript
• Cloud: AWS CDK, Lambda, S3, SQS, EventBridge, RDS, ECS Fargate, Cognito, IAM, CloudWatch

I am based in Toronto, Ontario, Canada.