Timothy Stiles
@TimothyStiles
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Building the world's most modern, open source, software library for genetic engineering. https://t.co/2QktmNwjOg…
San Francisco, CA
Joined January 2012
Dear everyone, LOOK AT WHAT GITHUB JUST ANNOUNCED.
Announcing the inaugural cohort of the GitHub Accelerator: 20 projects embarking on a 10-week journey to build a sustainable funding model. https://t.co/QYdsH0Terk
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Looks useful. Poly project from @TimothyStiles has a Golang pkg 'seqhash' ( https://t.co/673EmMdRLZ) as well, and seqkit has a 'sum' cmd for the whole fasta/q file, both supporting circular/linear, single/double-stranded seqs ( https://t.co/mtxOrd30Jh).
https://t.co/Tlg6C0BdVA
biorxiv.org
Background Synthetic biology involves combining different DNA fragments, each containing functional biological parts, to address specific problems. Fundamental gene-function research often requires...
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To all my friends in town for synbiobeta: Love y'all and want to see your faces but I'm sick and don't want to give y'all conference cough 😷
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I want to hire this kid.
I once gave a talk to a class of 9-10 year olds on morphogenetic plasticity. One raised his hand & asked: could we make a flying rhinoceros? I gave him the reasons why it was unlikely. Rightly shaming me for a lack of commitment, he said "so what, you're just giving up??!"
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Depends on how fast I can do the live demo but the talk I gave at synbiobeta the other year averaged out to a rate of 1 unique SpongeBob meme appearing every 18.75 seconds.
@TimothyStiles @PracheeAC @AsteraInstitute @koeng101 how many spongebob memes will be featured in said talk
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I remember the first meetup I ever went to in the Bay Area had steak, mezcal, a DJ, and a dude who figured out how to run windows 98 in the browser via web assembly showing off for 150 nerds. We used to be a community, a proper community.
Thinking about making a local meetup in SF called, "Anything but Beer, Pizza, and AI", because it's getting dismal out here folks.
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Thinking about making a local meetup in SF called, "Anything but Beer, Pizza, and AI", because it's getting dismal out here folks.
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Feels like there should be a regression test for this.
PSA, since I've now seen problems arising from this: As of Sept 2023, GATK no longer makes missing genotypes explicit in VCFs (i.e. "./." as in the VCF spec). Missing genotypes are instead coded as "0/0" with a DP=0 format field. See attached for examples.
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Do it with @ollama I've got llama2 running on a 16gb macbook air right now and the most difficult part of setup was waiting for the model to download.
are LLMs going to drive a swing back to on prem? i'm looking at $970/mo on AWS for the equivalent compute of my 16gb macbook seriously thinking of just buying two more macbooks and running omni from my living room
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annnd @ollama built with absolutely 0 errors on the first try with CGo which if you've used CGo before you know is impressive.
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There was a certain 𝒋𝒆 𝒏𝒆 𝒔𝒂𝒊𝒔 𝒒𝒖𝒐𝒊 to this event hosted by @ollama and @replicate tonight that made it feel really special. Never have I been so excited to go home after an event and build something with CGo.
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in awe of the size of this lad. what to do with this electric motor? lime for scale.
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everytime I see a code coverage badge above 90% on a git repo I get an unreasonable feeling of joy
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when one of your repos is getting more stars and traffic than usual but you have no idea why
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temporarily forgot that I write things in Go to avoid containers in general and had a 𝒗𝒆𝒓𝒚 𝒃𝒂𝒅 𝒕𝒊𝒎𝒆™
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Will also stress that @TwFlem wrote this for correctness. Don't worry if it isn't speed optimized yet there's stuff in the works for that.
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So @TwFlem made a PR for this absolutely bad*ss burrows-wheeler transform implementation based on @BenLangmead's youtube videos. https://t.co/GN7lJs5MDF I don't know enough about bwt to give this PR the review it deserves. Anyone here on this bird app who could lend us a hand?
github.com
Changes in this PR This is for #360. @TimothyStiles mentioned implementing a naive version of the BWT. At first I took his suggestion. As I read up on the applications of BWT for genomic data, the ...
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guy is a living reminder to not post photos with my windows open unless I want the whole world to know where I live
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