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February 14, 2005
Phylo Project Important Information
We have disovered 3 things that you will want to be aware of while working on your phylogenetics projects:
- The example dot files have a spurious "}" character midway in the files. You will want to ignore this extra closing curly brace. You can also do many more things to format your dot file to better meet your needs. The GraphViz website has a lot of good documentation.
- Problem 3 has an extra taxa that need to be deleted for the tree to make sense. The bad taxa is taxa number 8. You can download a new database here or you can delete the taxa from your current database. You need to copy the downloaded database over your existing database in your project distribution directory. To delete the taxa from your current database, you need to first have Microsoft Access installed on your machine.
- Open the phylo.mdb file located in the project distribution using Access
- Select the "tables" option in the viewer
- Open the tTaxa table
- Find the node 8 taxa for problem 3
- Right-click and choose delete record
- The current viewer only passes taxa sequences of 9 characters to your UnrootedTree:defineTaxa function rather than 10 character sequences as in the database. This is fine! Just work on 9 character sequences rather than 10.
Posted by egm at February 14, 2005 09:39 AM
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