Try out this thought experiment.
Suppose you are a bio professor, and a grad student came to you and said, "I'm trying to figure out what classes to take, and there're all these math, modeling, and computational courses that I could take. But I just don't think that math or …
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I'm giving a talk at XLDB 2012 tomorrow, and I thought I'd post a bunch of accompanying links and discussion, since this audience is pretty far away from my normal audience ;).
Here's the talk itself, on slideshare: Streaming and Compression Approaches for Terascale Biological Sequence Data Analysis
Acknowledgements (slide 3 …
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I'm starting to notice that a lot of bioinformatics is anecdotal.
People publish software that "works for them." But it's not clear what "works" means -- all to often either the exact parameters or the specific evaluation procedure is not provided (and yes, there's a double standard here where experimental methods …
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I've been invited to present at the Extremely Large Databases (XLDB) 2012 conference as a practicing biologist who occasionally speaks with physicists, and I'm trying to come up with something to say that will explain why physicists and biologists don't often collaborate all that well.
Here are some guesses.
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[ Note: I wrote the following e-mail to the Microbiology (MMG) department faculty mailing list here at MSU. I'll post any interesting responses that I get. --titus ]
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Hi all,
I'm an unabashed proponent of Open Access publishing, as well as the idea of decoupling correctness from estimated impact of a paper …
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One of the biggest problems with basic sequence analysis -- some would say the biggest problem -- is the error rate. If our sequencing reads were error-free, both assembly and mapping would be much, much easier. Alas, Illumina reads have a 0.1-1% error rate per base, and PacBio has an error …
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