David Koslicki
Associate Professor Of Computer Science & Engineering, Biology, And Huck Institutes Of Life Sciences
State College, Pennsylvania, United States
Summary
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Rockstar🎓
Top SchoolDavid Koslicki is an associate professor bridging computer science, mathematics, and life sciences who develops efficient, often discrete and optimization-driven algorithms to extract insight from large *-omics and metagenomic datasets. With a PhD in Mathematics and over a decade of academic experience at Oregon State and Penn State, he focuses on rigorous method development through theory, community-ready software, and real-world biological application. His work emphasizes reference-free and alignment-free genomic analysis, clever use of k-mer strategies, and Markov-chain models for molecular evolution, while also exploring systems-scale questions like gene regulatory and organism interaction networks. Colleagues value that he pairs deep mathematical justification with practical tool-building—turning abstract models into reproducible software that advances experimental science.
11 years of coding experience
6 years of employment as a software developer
Postdoc, Mathematical Biology, Postdoc, Mathematical Biology at Drexel UniversityDoctor of Philosophy - PhD, Mathematics, Doctor of Philosophy - PhD, Mathematics at Penn State UniversityPostdoc, Mathematical Biology, Postdoc, Mathematical Biology at The Ohio State UniversityBachelor of Science - BS, Mathematics, Bachelor of Science - BS, Mathematics at Washington State University
Github Skills (140)
package-management10
genomics10
mer10
expander10
minhash10
systems-biology10
hash10
bioconda10
biology10
conda10
earth-movers-distance10
agent10
containment10
bioinformatics10
computation9
Programming languages (12)
Github contributions (5)
KoslickiLab/YACHT
Apr 2023 - Feb 2025
A mathematically characterized hypothesis test for organism presence/absence in a metagenome
Contributions:62 reviews, 35 PRs, 117 pushes in 1 year 10 months
dkoslicki/CAMIARKQuikr
Dec 2015 - Jan 2020
Contributions:2 releases, 30 pushes, 1 branch in 4 years 1 month
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