Todd Harris, PhD
Welcome! This is the research blog of Todd Harris. I design and build information systems for large-scale biological data. This blog discusses genomics, bioinformatics, and science policy in general, with a particular focus on the development of biological databases, user interfaces, and data visualization.
If you’re a proper nerd, you probably use The Omni Groups excellent charting tool OmniGraffle.
And if you’re a serious nerd, you’ll definitely want to check out Graffletopia. They have over a million stencils for Omnigraffle. Hours of fun.
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“Targeted gene deletions in C. elegans using transposon excision” is now available in advance online publication form at Nature Methods.
Even after 40 years of intense genetics in the model system C. elegans, a large majority of genes have not yet been disabled by deletion. Although targeted deletions have been possible in flies and mice for years, the technology has been elusive in worms.
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At WormBase, we’ve been busy re-writing the website from the ground up to build a modern information discovery space that will generically handle genomic data.
As the project manager, I made the executive decision to switch from CVS/SVN to a distributed version control system (DVCS). I’d used both git and mercurial personally for over a year and enjoyed their flexibility.
And given the already distributed nature of our project, DVCS was a natural fit. (In fact, I believe that DVCS should be roundly adopted across the genomics/bioinformatics research sector precisely for this reason).
Nonetheless, for small teams accustomed to the quirks of SVN, the transition to DVCS can be a rocky road. Recently I came across Joel Spolsky’s excellent HG Init: Mercurial Tutorial.
If you’re considering or in the process of switching to Mercurial, I highly recommend checking out Joel’s tutorial and circulating it to your team.
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New Post: Weekly Digest for December 19th http://bit.ly/4SElTB [tharris]
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Weekly Digest for December 19th http://ff.im/d6I2H [tharris]
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50 finalists for #nikonfestival tonight! Support Hi-Lonesome and See You Then-be sure to comment! http://bit.ly/6mEDqI http://bit.ly/7rSdOQ [tharris]
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Ratings @nikonfestival nonintuitive: tooltips should be clearer ("click here to rate this 3 stars"), diff color when voting, confirmtn msg [tharris]
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See You Then a finalist in #nikonfestival! Go vote for this beautiful short film shot with a #D5000 http://bit.ly/6mEDqI #seeyouthen [tharris]
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Thanks for the RT, @23andme! “Here’s to you, genome finishers and curators!” http://bit.ly/7ZGIM0 (via @tharris) [tharris]
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All I want for Christmas is to have an inbox that doesn’t have any email in it. I’m easy. [tharris]
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