Phylogenetics: Searching Lab

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EEB 349: Phylogenetics

Part B: Searching under the parsimony criterion

1. Create the data file. Start PAUP*, press the Cancel button to dismiss the "Open" dialog box that appears, and choose File > New from the main menu. Copy the data from here into the (blank) editor window that appears, and save it as angio35.nex
2. Create a command file. Once again choose File > New from the main menu to create a second blank file, then type in the following text, saving this as run.nex:

   #nexus
   
   begin paup;
     log file=output.txt start replace;
     execute angio35.nex;
   end;