PhySIC_IST: cleaning source trees to infer more informative supertrees.
Scornavacca C., Berry V., Lefort V., Douzery E.J.P., Ranwez V.
BMC Bioinformatics. 2008, Oct 4;9:413.
paper if you use PhySIC_IST.
PhySIC_IST online execution
More explanations are given in
The online interface
It is a web form that you fill with your data and values for the program options, your name; then click on the "Execute & email results" button to start the program with your settings; after a while you will receive your results by email.
For a quick start, simply select the "Example" radio button, type your email, and click the "Execute & email results" button. This will run the program with default values; the example tree file contains three trees in Newick format.
With the above example input file you will obtain the following supertree in setting the bootstrap threshold to 60:
The supertree inferred by PhySIC_IST is outputted in Newick format. It can be visualized with usual tree viewing/editing softwares such as TreeDyn, Treeview X or DendroScope.
PhySIC_IST also outputs the list of input taxa not inserted in the supertree (if any) and the value of the CIC for the proposed supertree. The CIC value measures the informativeness of the supertree (see the paper for details).
PhySIC_IST also outputs a "newForest" file. This file will contain the modified source trees.