Overview
What this challenge is about.
Build a Nextflow variant-calling pipeline for a genomics platform, validate against a truth set, and earn a verifiable certificate.
The scenario
The vendor (Series A, USD 12M raised, research-only labeling) ships to 60 academic labs whose grant reviewers ask exactly one question: is the pipeline reproducible.
The Brief
What you'll do, and what you'll demonstrate.
Replace ad-hoc shell scripts with a containerized, reproducible variant-calling pipeline validated against the GIAB HG002 truth set.
Earning criteria — what you'll demonstrate
- Compose a real bioinformatics pipeline with a workflow manager
- Apply GATK best-practices in a reproducible way
- Validate variant calls against the GIAB truth set
- Communicate reproducibility evidence to academic users
Program Fit
Where this fits in your program.
Sharpens the same skills your degree expects you to demonstrate.
Aligned coursework coming soon.
Skills
Skills you'll demonstrate.
Each one shows up on your verified credential.
- Bioinformatics
Apply bioinformatics to solve real industry problems and demonstrate production-level capability.
- Variant Calling
Apply variant calling to solve real industry problems and demonstrate production-level capability.
- Workflow Orchestration
Apply workflow orchestration to solve real industry problems and demonstrate production-level capability.
- Containerization
Apply containerization to solve real industry problems and demonstrate production-level capability.
- Reproducibility
Apply reproducibility to solve real industry problems and demonstrate production-level capability.
- Benchmarking
Apply benchmarking to solve real industry problems and demonstrate production-level capability.
Careers
Career paths this challenge builds toward
Completing this challenge demonstrates skills that transfer directly to these roles: