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 18 10:42 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.

Lean vs Lean
Rick asked whether we had compared our ecotype genomes to the published lean reference genome, and specifically lean to lean. We had all the pieces…
_{Oct 16, 2026 · Genomics · Computing}

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}

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