Description
Random algorithms and probabilistic data structures are algorithmically efficient and can provide shockingly good practical results. I will give a practical introduction, with live demos and bad jokes, to this fascinating algorithmic niche. I will conclude with some discussions of how our group has applied this to …
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I'm worried about our current mRNAseq analysis strategies.
I recently posted a draft paper of ours to arXiv entitled RNA-Seq Mapping Errors When Using Incomplete Reference Transcriptomes of Vertebrates; the link is to the Haldane's Sieve discussion of the paper. Graham Coop said I should write something quick, and so …
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Over the last few weeks, I've been on a bit of a Cory Doctorow kick. I started by reading Homeland, a sequel to the excellent Little Brother; these two very important books about anti-terror-enabled government suppression of liberty and free speech are very well written and extremely timely. I then …
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Or, "can we crowdsource BGI?" ;)
With all of the crazy need surrounding genomic analysis -- most of it on a shoestring budget -- I am thinking about a mildly crazy idea.
What if I offered to computationally analyze people's non-model transcriptomic and metagenomic data for them, in exchange for (a) non-exclusive access …
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I just finished attending a 1-day workshop on Cyberinfrastructure for Marine 'Omics down in DC. It was a meeting organized by the Gordon and Betty Moore Foundation but attended by program managers from about a dozen different agencies and divisions (NSF BIO, NSF GEO, etc.); a bunch of pretty serious …
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I'm on my way down to D.C. to attend another meeting about cyberinfrastructure, this time with a bent towards metagenomics pipelines. (At least, I'm pretty sure that's why I'm invited. It's getting hard to tell these days.)
Inspired by James Watters' blog post on his "fork you" shirt, I …
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Julia Gustavsen and I just finished teaching one room of a 3-room Software Carpentry boot camp at University of Washington, Seattle.
Students remained interested and vocal, even when looking exhausted.
Almost all came back the second day!
We got some good individual feedback that we'd taught useful things …
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