I just finished my third workshop in two weeks. I taught 3.5 days of microbial bioinformatics at Caltech, 2 days of intro computing for biologists at MSU, and another 2-day intro computing for biologists workshop at UW. The Caltech workshop was sponsored by CEMI, the Caltech Environmental Microbial Initiative …
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I just finished reading A House in the Sky, by Amanda Lindhout and Sara Corbett. It's an excellent book about Amanda Lindhout's kidnapping and ransom by Somalian Muslims; it's very well written, engaging, and utterly terrifying and horrible to read. Highly recommended.
--titus
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Erica Check Hayden at Nature News wrote this article about a Mozilla Science Lab effort to bring code review to scientific code. Code review is an important part of many open source, startup, and corporate software development cultures, and the goal of the Mozilla effort is to See What Happens …
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Note: This is a proposal being submitted by Tracy Teal (@tracykteal) for PyCon '14. I suggested she post it here for feedback, because she does not have her own blog. --titus
TITLE: How I learned to stop worrying and love matplotlib
CATEGORY: Science
DURATION: I prefer a 30 minute time …
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Question: What do Nick Loman, Jared Simpson, Lex Nederbragt, and I all have in common?
Answer: We all spend way too much time thinking about assembly.
Question: What does Jonathan Eisen's lab do?
Answer: Sequence lots of really weird things that they'd like to assemble.
Motivated by …
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We've just posted a new paper to arXiv: "These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure." We'll be submitting it to PLoS One after we wait a few days for comments from the Twittersphere and/or on Haldane's Sieve.
The …
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The paper Howison et al., 2013, just appeared in early form in Bioinformatics. Here is my first round review, which they handily addressed in their revisions; since I was quite positive I felt I might as well post the whole thing, though.
Note that a relevant paper from Mihai Pop …
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