I keep analyses public so that results can be checked, reused, and built on. Everything below is on GitHub; each repository’s README explains its layout and how to reproduce the results.

Fisheries assessment

Washington Department of Fish and Wildlife projects on coastal shellfish fisheries.

Coastal-Rec-Crab-BSS Recreational Dungeness crab harvest estimation, Grays Harbor / Westport Bayesian state-space and stratified point estimators of recreational crab effort, catch rate, and harvest for shore and private-boat crabbers, with a modular R and Stan pipeline and regression diagnostics.R, Stan razor-clam-recruitment-analysis Razor clam recruitment and climate Climate-driven recruitment analysis for the Washington coastal recreational Pacific razor clam fishery, 1997-2025.R

Shellfish and salmon physiology and genomics

University of Washington and NOAA projects, 2020-2023. Day-by-day methods for these and related projects are documented in the lab notebook.

NOPP-gigas-ploidy-temp Ploidy and marine heatwaves in Pacific oysters Hatchery experiments on diploid and triploid oysters exposed to elevated temperature and desiccation: mortality, respiration, feeding, enzyme activity, and Tag-seq gene expression. Data and code behind George et al. (2023) Global Change Biology.R, Bash PSMFC-mytilus-byssus-pilot Genomic markers of mussel attachment Byssal thread strength of Mytilus trossulus under acidification, warming, and hypoxia, linked to foot and gill Tag-seq, Iso-Seq transcriptome assembly, and enrichment analyses.R, Bash Berdahl-sockeye-salmon Gene expression and behavior in sockeye salmon Tag-seq differential expression and gene co-expression networks associated with territorial and social behavior in sockeye salmon, rebuilt as a reproducible Quarto project.R, Quarto

Guides

Lab notebook

My open lab notebook records experiments and analyses by project. You can also browse all entries by date.