(Please contact us at bnsacks@ucdavis.edu if you are interested in access to any of this data. We're still working out how and when to make it public.)
The tule elk (Cervus elaphus nannodes) is a California-endemic subspecies that underwent a major genetic bottleneck when its numbers were reduced …
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I just left Woods Hole, MA, where I spent the last 6 and a half weeks taking the Microbial Diversity course as a student. It was fun, exhausting, stimulating, and life changing!
The course had three components: a lecture series, in which world-class microbiologists gave 2-3 hrs of talks each …
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As I wrote last week my latest enthusiasm is MinHash sketches, applied (for the moment) to RNAseq data sets. Briefly, these are small "signatures" of data sets that can be used to compare data sets quickly. In the previous blog post, I talked a bit about their effectiveness and showed …
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(I gave a talk on this on Monday, April 11th - you can see the slides slides here, on figshare.
This is a Reproducible Blog Post. You can regenerate all the figures and play with this software yourself on binder.)
So, my latest enthusiasm is MinHash sketches.
A few weeks back …
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So, there's this fairly large collection of about 700 RNAseq samples, from 300 species in 40 or so phyla. It's called the Marine Microbial Eukaryotic Transcriptome Sequencing Project (MMETSP), and was funded by the Moore Foundation as a truly field-wide collaboration to improve our reference collection for genes (and more …
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I'm writing a proposal to the Sloan Foundation for about $20k to support a workshop to hack on mybinder. Comments solicited. Note, it's, umm, due today ;).
(I know the section on "major related work" is weak. I could use some help there.)
If you're interested in participating and don't mind …
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