Methods for phylogenetic trees construction

Methods for phylogenetic trees construction (16/08/2016)

This training session is organized by the bios4Biol CATI and the Genotoul bioinfo platform and aims at training participants to construct and interpret phylogenetic trees. You will discover how to choose an evolutionary model and a phylogenetic inference method (among distance, parsimony, maximum likelihood and Bayesian methods) and how to evaluate the robustness of a tree using bootstrap.



This training focuses on practice. It consists of four modules with a large variety of exercises described hereunder:

  • Introduction (09:00 am to 10:30 am): Basic concepts, Genetic distances and nucleotide substitution models.
  • Phylogenetic inference methods (part 1) (10:45 am to 12:45 pm): Distance and parcimony methods.
  • Phylogenetic inference methods (part 2) (14:00 pm to 15:45 pm): Maximum likehood methods and introduction to Bayesian methods.
  • Conclusion (16:00 pm to 17:00 pm): Testing tree topologies (bootstrap) and finaly how to choose a method ?


The session will take place in the room ‘salle de formation’ at INRA center of Toulouse-Auzeville.


Prerequisites: ability to use a Unix environment (see Unix training) and knowledge of the sequence alignment (see Sequence alignment training). Training materials will be available on the website before the session. Slides in a “taking notes” format will be downloadable from our web site. A Unix reference command leaflet will also be provided. Only the latter will be available during the session.



Bookings: Methods for phylogenetic trees construction

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