Computational Biology (Fall 2011)

• Lecture
  Wed 13-14 CAB G 52
  Fri 13-15 ML F 34
• Exercises
  Thu 14-16 CAB H 56
• (If you will be using a terminal from windows on your own computer, please get a ssh client such as putty.exe as the department does not allow insecure connections such as those provided from the Windows terminal program.)

Help Resources

• Getting started with Darwin
• Darwin Online Help
• Introduction to Darwin bio-recipe
• Darwin Quick Reference
• Old version of Darwin manual (quite buggy)
• Overview of basic linux commands
• Computational Biology on the VIS wiki

Lecture Notes (New!)

We are in the process of preparing a script for the course. Please contribute to the lecture notes wiki (login using your NETHZ account).

Downloads

• Download darwin (new URL!) to install it on your own computer.
• The SwissProt database which can be used for larger analyses, e.g. the Dayhoff matrix bio-recipe.

Books

No books are required but much of the material will come from CBRG papers and we will also follow closely some chapters from the book by Dan Gusfield entitled "Algorithms on Strings, Trees, and Sequences". A good reference book for Phylogeny is "Inferring Phylogenies" by Joseph Felsenstein.

If you are interested, you can read this article about DNA for computer scientists