Tree Comparison

Right before the break (early March), Dr. Miller and I had been working on constructing the 26 samples tree using various programs (see previous posts). After a lot of trial and error, we finally got decent trees from each program. However, since the outcome trees looked very different in each program, we used a software TreeGraph to standardize and compare the trees. When loading the files into the software, you would have to convert the file into nexus file simply by adding .nex in the file name. Below is the comparison between 4 trees:

In order of RAxMl, GARLI, MrBayes, BEAST

Fortunately, trees from GARLI and MrBayes looked exactly the same while the other two resembled them without great differences. This gave us a pretty good picture of the time-included tree in which we will later be working on. This is a rather short post because the process was lengthy and complicated that I don't think I will be able to explain it comprehensively here.

Time is going fast and it'll be April when we returned from the break! Hopefully we will be able to achieve some work before the year ends!