The 2012 MSU Next-gen Sequence Analysis course application period just closed, and we received 168 applicants. Last year, we received 133, and the year before that we received 33.
We can take 24.
I was also invited to go teach a ~1 week workshop at two other universities on these …
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I'm putting together a computational pipeline for a paper - a Makefile that runs a ton of stuff and outputs files, combined with an ipython notebook file that takes those output files and turns them into figures for inclusion in a LaTeX file. (Yes, very 2000, except for the ipython notebook …
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If you're like me, we pretend to care about the science in bioinformatics software. But what we really do is try to find reasons not to outright loathe the software -- because, lud knows, there are usually plenty of reasons to hate it.
In no particular order, here are the top …
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(updated to point to http://arxiv.org/).
Authors: Jason Pell, Arend Hintze, Rosangela Canino-Koning, Adina Howe, James M. Tiedje, C. Titus Brown
Abstract:
The memory requirements for de novo assembly of short-read shotgun sequencing data from complex microbial populations are an increasingly large practical barrier to environmental studies. Here we …read more
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(and some related thoughts on reproducibility in computational science)
In a recent news article on the "data deluge" in biology, I was quoted as saying "It's not at all clear what you do with that data. Doing a comprehensive analysis of it is essentially impossible at the moment." So, naturally …
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This blog post was inspired by two recent events.
First, in response to a NY Times article about the "data deluge" affecting biologists, one of my Facebook friends said something like "stop whining about how hard it is to analyze the data and do some good experiments instead!" I vehemently …
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I'm just on my way back from a JGI workshop on metagenome informatics, and I thought I'd take the opportunity to write up a short review.
The workshop was, frankly, excellent. We saw a bunch of talks on metagenome assembly (my current interest) as well as single-cell sequencing approaches, and …
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