Live from Cape Town

I arrived at AIMS (the African Institute for Mathematical Sciences) yesterday. Its a great place, right on the Muizenberg beach near Cape Town - quite a thrill after being in Duluth this time of year.

I have volunteered to teach a short course on bioinformatics algorithms here, using biopython and Sage as the computational platform. It will be very interesting to see how it goes over. I am using the Plasmodium species which cause malaria as a source of examples and projects.

Below is a satellite picture of the cape peninsula and a view of Muizenberg that includes the main AIMS building.

OpenWetWare and Sage

After reading a nice article by Julius Lucks on OpenWetWare, about python, biopython and SWIG, I suggested he check out Sage. He in turn suggested I write something up on OpenWetWare, and so I have. Hopefully this will lead to some more biology and bioinformatics interest in Sage.

G+C content as a linked image map

An image map of the human mitochondrion, linked to its GenBank entry by region, showing the G+C content in a small window. Created in Sage using the biopython optional module and this source code.