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Use LumberJack to create and compare a forest of phylogenetic trees

Use LumberJack to create and compare a forest of phylogenetic trees. Carolyn Lawrence Department of Plant Biology University of Georgia Athens, Georgia USA. How to Build a Phylogenetic Tree. Align all sequences to be included in the tree. Build trees. Compare Trees.

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Use LumberJack to create and compare a forest of phylogenetic trees

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  1. Use LumberJack to create and compare a forest of phylogenetic trees Carolyn LawrenceDepartment of Plant BiologyUniversity of GeorgiaAthens, Georgia USA

  2. How to Build a Phylogenetic Tree • Align all sequences to be included in the tree • Build trees • Compare Trees or or or ? http://www.botany.uga.edu/~carolyn BOSC 2002

  3. How many trees are there to compare? Sampling strategy... http://www.botany.uga.edu/~carolyn BOSC 2002

  4. LumberJack’s sliding window Underlying Sequence Alignment 1. Creates and compares a forest of trees fast 2. Reveals interesting regions of the alignment http://www.botany.uga.edu/~carolyn BOSC 2002

  5. What does it look like? http://www.botany.uga.edu/~carolyn BOSC 2002

  6. Output http://www.botany.uga.edu/~carolyn BOSC 2002

  7. For more info, come see my poster! http://www.botany.uga.edu/~carolyn BOSC 2002

  8. Why I appreciateOpen Source! http://www.botany.uga.edu/~carolyn BOSC 2002

  9. Acknowledgements Friends and Collaborators: ATV Christian Zmasekhttp://www.genetics.wustl.edu/eddy/atv/ PAL project Drummond, Buckler, & Strimmer http://www.stat.uni-muenchen.de/~strimmer/pal-project/Major Professors:LumberJack Russell L. Malmberg I-Type kinesins R. Kelly Dawe LumberJack Contacthttp://www.botany.uga.edu/~carolyn carolyn@dogwood.botany.uga.edu

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