1. Welcome to my new blog!

    I've just moved my blog over to Pelican, a static blog generator that takes in reStructuredText and spits out, well, this! I'm now using Disqus for commenting, too.

    The main motivations for the move (apart from slightly better theming) were to escape dynamic-blog-land in favor of static-blog-land, while enabling a …

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  2. A call for open lab and reusable lab protocols

    About a year ago, I came across a really interesting Science paper entitled "Rapid and inefficient isolation of single cells from soil". In it, the authors -- from a well-known lab at UC Davis -- described how they used low-percentage agarose gels to extract thousands of individual cells from a soil sample …

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  3. Some early experience in teaching using ipython notebook

    As part of the 2012 Analyzing Next-Generation Sequencing Data course, I've been trying out ipython notebook for the tutorials.

    In previous years, our tutorials all looked like this: Short read assembly with Velvet -- basically, reStructuredText files integrated with Sphinx. This had a lot of advantages, including Googleability and simplicity; but …

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  4. DRAFT: A community-focused pre-publication data release and sharing policy for sequence data

    This is a draft proposal of a policy to encourage pre-publication data release and data sharing within a community. This policy is based on discussions at the Cephalopod Genomics Workshop (a Catalysis workshop sponsored by NESCent).

    Note, this is made available under a CC-BY-SA license permitting use and re-use with …

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    The theme is subtlely modified from one by Smashing Magazine, thanks!

    For more about this blog's author, see the main site or the lab site

    While the author is employed by the University of California, Davis, his opinions are his own and almost certainly bear no resemblance to what UC Davis's official opinion would be, had they any.