Jennifer Chang
Senior Bioinformatics Analyst
Seattle, Washington, United States
Summary
🤩
Rockstar🎓
Top SchoolJennifer Chang is a senior bioinformatics analyst with 14 years of experience building automated genomics pipelines, visualizations, and HPC workflows across academia, government, and nonprofit teams. She holds a PhD in Bioinformatics and Computational Biology and has shipped C++ visualization tools (Mango, Lucy2), co-founded a data-analytics startup, and contributed 300+ PRs to Nextstrain including significant work on the SARS-CoV-2 build and Terra/S3 integrations. Her work at USDA and Fred Hutch emphasizes reproducible Nextflow pipelines, routine surveillance reporting for influenza in swine, and empowering users through tutorials and office hours. Comfortable at the intersection of back-end engineering, DevOps, and biological insight, she excels at turning complex sequencing data into concise summaries that drive the next research question. Based in Seattle, she brings both deep tooling chops and a collaborative, community-focused approach to pathogen genomics.
14 years of coding experience
6 years of employment as a software developer
BA Computer Science & Biochemistry, BA Computer Science & Biochemistry at Cornell CollegePh.D Bioinformatics and Computational Biology, Ph.D Bioinformatics and Computational Biology at Iowa State University
Stackoverflow
111reputation
59kreached
1answer
0questions
Github Skills (12)
automation10
docker10
automations10
wdl10
devops10
terra10
dockers10
python9
snakemake9
aws7
awk6
sed6
Programming languages (18)
Github contributions (5)
nextstrain/ncov
Nov 2021 - Dec 2022
Nextstrain build for SARS-CoV-2
Role in this project:
Back-end & DevOps Engineer
Back-end & DevOps EngineerContributions:37 reviews, 80 commits, 61 PRs in 1 year 1 month
Contributions summary:Jennifer primarily contributed to the development and maintenance of the Nextstrain workflow, with a focus on streamlining build processes and integrating with the Terra platform. The user refactored the workflow by adding optional inputs to allow for flexibility in how sequence and metadata are provided, along with improvements to the underlying task structure. Furthermore, they implemented integrations with Terra, including documentation to guide users on running analyses, and added functionality for deploying outputs to an S3 bucket. The user also made adjustments to the ingest processes, including the splitting of tasks and improvements to caching mechanisms, all aimed at enhancing workflow efficiency.
ncovnovel-coronavirussars-cov-2sars-covnextstrain
j23414/pdm1957
Feb 2020 - Sep 2023
Pandemic of 1957
Contributions:2 PRs, 36 pushes, 4 branches in 3 years 8 months
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