John Mcguigan
Senior Software Engineer at Natera
Holly Springs, North Carolina, United States
Summary
👤
Senior🎓
Top SchoolJohn Mcguigan is a senior software engineer and bioinformatics specialist with 11 years of experience designing and optimizing high-throughput sequencing workflows for clinical and research settings. He combines deep domain knowledge in HTS data analysis with strong software engineering practices, shipping production-grade pipelines and tools in Python, R, Rust, Scala, and Nextflow. His work spans cloud deployments, automation (Ansible), and integrations with platforms like DNAnexus and AWS S3, and he has a track record of improving pipeline performance by over 20%. At TwinStrand he built multithreaded services, high-performance Rust tooling for VCF generation, and haplotype callers for error-corrected sequencing; he now applies that expertise at Natera. Trained as a biochemist at Penn State, he brings a practical blend of wet-lab understanding and systems-level engineering that helps bridge algorithm design and operational reliability.
11 years of coding experience
7 years of employment as a software developer
B.S. Biochemistry and Molecular Biology, B.S. Biochemistry and Molecular Biology at Penn State University
Github Skills (95)
slurm10
github10
dataflow10
python10
data-manipulation10
pipeline-framework10
genomics10
reproducible-science10
singularity10
dataframes10
pandas10
nextflow10
pipeline10
rna-seq10
git10
Programming languages (9)
Github contributions (5)
jrm5100/clarite-python
Mar 2020 - Jul 2021
CLeaning to Analysis: Reproducibility-based Interface for Traits and Exposures
Contributions:2 releases, 256 pushes, 39 branches in 1 year 4 months
cleaningreproducibilitytraits
HallLab/pandas-genomics
Sep 2020 - Jul 2021
Pandas ExtensionDtypes for dealing with genomics data
Contributions:12 releases, 182 commits, 24 PRs in 10 months
pythongenomics-datagenomicsbioinformaticspandas
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