Jill Hagey
Bioinformatician
Atlanta, Georgia, United States
Summary
👤
Senior🎓
Top SchoolJill Hagey is a bioinformatician and genomics platform lead with eight years of experience turning microbial sequencing data into reliable, actionable public health insights. At the CDC she led modernization of large-scale WGS pipelines for antimicrobial resistance and healthcare-associated pathogens, delivering CLIA-aligned modes, cloud/HPC portability, and usability improvements used in high-stakes lab settings. Her work blends pathogen genomics, software engineering, and applied machine learning, with deep interest in scalable workflow architecture (Nextflow/WDL) and performance-aware data processing. An active open-source contributor, she’s helped build and test Nextflow DSL2 modules in the widely used nf-core ecosystem, improving tool reusability and containerized testing. Known for shipping maintainable platforms, mentoring teams, and translating complex outputs into clear guidance, she routinely bridges lab, epidemiology, and engineering stakeholders. Trained as an animal biologist with a PhD focus on host–microbe interactions, she brings both domain rigor and practical engineering to public-health genomics.
8 years of coding experience
10 years of employment as a software developer
Doctor of Philosophy - PhD Animal Biology Designated Emphasis in Host-Microbe Interactions., Doctor of Philosophy - PhD Animal Biology Designated Emphasis in Host-Microbe Interactions. at University of California, DavisAssociate of Science (AS) Natural Science and Mathmatics, Associate of Science (AS) Natural Science and Mathmatics at Yuba College
Github Skills (11)
go-modules10
jsmodules10
kernel-module10
nf-core10
dsl10
testing10
pipeline9
workflow-automation9
workflow-engine9
argo-workflows9
python4
Programming languages (8)
Github contributions (5)
nf-core/modules
Apr 2022 - May 2022
Repository to host tool-specific module files for the Nextflow DSL2 community!
Role in this project:
Automation Engineer / Build & Release Engineer
Automation Engineer / Build & Release EngineerContributions:4 reviews, 23 commits, 4 PRs in 27 days
Contributions summary:Jill primarily contributed to the development and maintenance of modules within the nf-core/modules repository. These contributions involved integrating and testing various bioinformatics tools, like srst2, minimap2, and gamma. The user's work included creating and updating Nextflow DSL2 module definitions, writing tests, and adjusting container configurations, thereby improving the reusability and robustness of the modules. They also updated paths and configuration within the test files.
nf-corehostnextflow-dsl2nextflowdsl2
CDCgov/phoenix
May 2022 - Feb 2023
🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
Contributions:9 releases, 1 review, 311 commits in 8 months
pipelinepathogensantimicrobialshortbioinformatics
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