Scientist at IDM ♥s epidemiology, running, prob stats, 🦀/🐫, fly fishing, greyhounds, backpacking. Author of book Bioinformatics Data Skills. All views my own.
Joined August 2009
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May 15
Happy to share the alpha release of camdl, a new compartmental modeling framework I've been cooking up.
With coding agents writing more of our scientific code, I think it's more important than ever to shift to architectures that engineer in robustness...
vincebuffalo.com/blog/introd…
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Number of computers on the Internet:
💻 June 2026 this Knicks championship: ~30 billion
💻 May 1973 last Knicks championship: 42
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Jun 13
Okay, I guess I'll watch some Brewers games now too.
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david hockney with his dachshunds stanley and boodgie. RIP 🕊️
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Jun 11
Interesting. AI will in effect increase both supply and demand for formal methods. You need them more, but you also have tools that make them cheaper.
blog.janestreet.com/formal-m…
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Why do people p-hack? Because:
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Jun 12
I enjoy using IGV, but I need a more efficient tool for analyzing diploid genomes. So, I developed one for myself. It provides exceptional GPU acceleration, allowing me to uncover all essential information spanning six orders of magnitude. #bioinformatics #genomics #visualization
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Jun 11
I applaud Piketty et al for embracing artificial intelligence.
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Jun 12
This is part of a larger trend of generative tools paired with verification that is so exciting right now. One of the things that’s blossoming under agentic coding. Types FTW!
Jun 11
I've been telling people for 25 years that Jane Street is not interested in formal methods.
No more!
And we're actively hiring to form a new formal methods team!
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Jun 10
Possibly the most painful chart to look at in energy policy:
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Jun 11
Our grid is so fragmented, we get crazy outcomes like this:
In some parts of the US, wholesale electricity prices are negative for ~25% of the year.
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Jun 10
I’m annoyed by excessive biosecurity filters too, but people forget: risk = probability × severity.
For catastrophic tail risks, the prudent default is oversensitive filters that are audited and tuned down, not weak filters that need tuning up after dangerous false negatives.
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Jun 9
Over lunch today I was asking Claude to help me feel less disillusioned by the direction of modern biology, and it gave me a well-reasoned reply that did precisely the opposite.
Claude nails it here:
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Jun 9
“measurement technologies generate their own research programs. Once you can measure something at single-cell, spatial, genome-wide resolution, the field reorganizes around producing and indexing that measurement… ‘we mapped it’ gets published as though mapping were explaining.”
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I got curious about the real story of Ozempic Gila monster spit people cite when advocating for basic research funding. The truth is more interesting, and shows us more about the stories we tell ourselves about science than it convinces people to maintain the funding status quo
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Jun 5
I’ve been using em dashes a decade before ChatGPT was a thing. They’re beautiful punctuation — I refuse to let LLMs steal them from us.
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Jun 4
Each time we release a model, we run the same test: give it code that trains a small AI model, ask the new model to speed it up. It takes a skilled human 4-8 hours to reach 4x faster.
In May 2024, Claude Opus 4 averaged a ~3x speedup. This April, Mythos Preview achieved ~52x.
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Jun 4
Very good to see this!
Jun 4
Sam Altman, Dario Amodei, Demis Hassabis and many others have signed a letter urging Congress to increase security on orders of synthetic nucleic acids - and the equipment needed to make them - as models continue to become increasingly bio-capable.
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