Practicals
Click the links to download the data and instructions (in a single .zip file) for each practical.
If you have trouble opening the file, just email Rob.
- Practical 1: Xenoturbella and the diet of worms. Answers
- Practical 2: The evolution of whales and dolphins. Answers
- Practical 3: A mysterious hominin from Siberia. Answers
- Practical 4: The extinction of the cave bear. Answers
RaxML online, and on Macs
If you were one of the workshop attendees who had trouble running RaxML (sorry!), then try these online RaxML servers when you want to run your next analysis:
http://phylobench.vital-it.ch/raxml-bb/
http://www.bioportal.uio.no/
Below are RaxML Mac executables that you can download and try. They are a series of different versions of RaxML v7.2.8 ALPHA (the latest version in May 2012). They were all compiled for Intel 64-bit Macs. The ones with "PTHREADS" in the name are parralellised (you need to pass an extra option to RaxML to the commandline to tell it how many processors to use). If this all sounds like gibberish, just try the version called "RaxML_intel64". That should work just like the version we used (or tried to use) in the workshop. If they don't work for you, either go with the online versions above, or download and compile the RaxML source code on your machine, see the RaxML homepage for details.
If you use RaxML in your published work, make sure to cite the correct paper:
http://bioinformatics.oxfordjournals.org/content/22/21/2688.full