I'm Steven — I work at the University of Washington, where I study shellfish, genomes, and the places those two things collide. Nearly everything I do ends up in a repo somewhere: code, data, half-finished analyses, and the occasional idea that didn't survive contact with the data.

13.3 °C in the water off Manchester, Puget Sound, Oct 11 12:12 local, via NOAA CO-OPS Tacoma, WA.

That number is real, and it's a decent indicator of where I am. If I've gone quiet on here, odds are I'm standing in it — out at a shellfish farm doing the part of this job that no amount of compute will do for me.

Whatever comes of either half — a methylation signal, a genome assembly that finally behaves, or a bag of oysters that didn't — gets written up here.

Chilean vs Olympia Oyster Methylation, and What Sits Inside GN020540
The Ostrea chilensis WGBS write-up is in post 94: 15 files that turned out to be 9 libraries, the Quilhua vs Rio Pudeto comparison, and GN020540 as…
_{Oct 10, 2026 · Epigenetics · Genomics}

Ploidy and pH Don’t Move Methylation, Genotype Does
Haws diploid and triploid C. gigas, high vs. low pH, 6 oysters per ploidy × pH cell (24 total, WGBS). Earlier passes (04-methylKit, 04-DSS)…
_{Oct 2, 2026 · Epigenetics · Computing}

Olympia Oyster lcWGS on the New Chromosome Assembly
The oly-lc-WGS repo holds low-coverage whole genome sequencing for 112 Olympia oysters (Ostrea lurida) from 15 sites: 13 around Puget Sound plus…
_{Sep 28, 2026 · Genomics · Computing}

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