The Terabase Metagenomics meeting was good fun, but I most valued the computational component (because that's what I do). Rachel Mackelprang and Rob Knight and I wrote down a list of the computational issues involved in a petabase metagenomics project, and that list will help direct my future research. I'll …
read moreThere are comments.
I'm on my way back from the Terabase Metagenomics meeting in Snowbird, UT, and I'm buzzing with ideas about how to move forward in metagenomics and bioinformatics research. Metagenomics, the use of genomics approaches to study microbial communities, has been opening up as sequencing drops in price. With sequencing becoming …
read moreThere are comments.
(Everyone needs an "I'm wonderful" wall, right? Here's mine!)
My rather snarky post on data management made it into Episode 34 of the Coast to Coast Bio Podcast.
Turns out I'm now a leading evangelist for cloud computing in genomic research, which I guess is true if evangelism is relative …
read moreThere are comments.
I've spent the last few weeks working on a simple solution to a challenging problem in DNA sequence assembly, and I think we've got a nice simple theoretical solution with an actual implementation. I'd be interested in comments!
Briefly, the algorithmic challenge is this:
We have a bunch of …
There are comments.
After my recent next-gen sequencing course, which was supposed to tie into the whole software carpentry (SWC) effort but didn't really succeed in doing so the first time through, I started thinking about the Right Way to tie in the SWC material. In particular, how do you both motivate scientists …
read moreThere are comments.
Laurie Dillon just posted the SIGPLAN eduction board article on Why Undergraduates Should Learn the Principles of Programming Languages to our faculty mailing list at the MSU Computer Science department. One question that came up in the ensuing conversation was: what functional programming language(s) would/should we teach?
I …
read moreThere are comments.
Our sequencing analysis course ended last Friday, with an overwhelmingly positive response from the students. The few negative comments that I got were largely about organizational issues, and could be reshaped as suggestions for next time rather than as condemnations of this year's course.
The 23 students -- most with no …
read moreThere are comments.