I just parachuted in on (and heli'd out of?) the Beyond the Genome conference in Boston. I gave a very brief workshop on using EC2 for sequence analysis, which seemed well received. (Mind you, virtually everything possible went wrong, from lack of good network access to lack of attendee computers …
read moreThere are comments.
In thinking about open science and open communication about science, I've always been frustrated by the people who claim that the risks outweight the benefit. Their arguments seem sound if you buy into a certain kind of logic (the creationists will try to twist whatever you say! the climate change …
read moreThere are comments.
(with Billie Swalla)
I've spent the last two weeks out at the Roscoff Statione Biologique in Roscoff, France. This little port is on the northern coast of the French region of Bretagne, or Brittany. I'm here with Billie Swalla, a professor at UW Seattle, and Elijah Lowe, a Computer Science …
read moreThere are comments.
(with Adina Howe, Jason Pell, Rosangela Canino-Koning, and Arend Hintze).
A few weeks ago I blogged a bit about a k-mer filtering system, khmer, that we were using to reduce metagenomic data to a more tractable size by throwing out error-prone reads (see A memory efficient way to remote …
There are comments.
I'm a big believer in open science -- see this great polemic over at Mendeley for a good read -- but it's always interesting to think about how such things as "data release" can be perverted by clever scientists. I'm currently in France working on some ascidians with Billie Swalla -- more on …
read moreThere are comments.
Course page at: http://ged.msu.edu/courses/2010-fall-cse-891/:
This course will introduce biologists to computational thinking, practical computational techniques, and research topics in computational evolution. The course will consist of three intensive hands-on 5-week modules: computational competence in UNIX; data mining and hypothesis generation using the Avida digital life …read more
There are comments.
(This project is a collaboration with Jason Pell and Adina Howe)
A few weeks ago I posted about a k-mer filtering approach that we were using to remove low-abundance k-mers from metagenomic data sets, prior to assembly. This technique is working well, and we've managed to do some assembly of …
read moreThere are comments.