Phylogentic analyses are gradually reaching genomic scales. Nowadays, many resources and surveys encompass a large number of trees that, often, cannot be manually analyzed. Bioinformatics toolkits are intended to provide a flexible framework to deal with specific data in a programmatic way, thus facilitating the analysis of large collections of data. The Environment for Tree Exploration (ETE, http://ete.cgenomics.org) is a Python programming toolkit specially focused on dealing with hierarchical trees. It allows, for instance, to perform a number of operations on phylogenetic trees, as well as designing automatic pipelines. It also provides a highly customizable drawing engine, which can be used to create complex annotated tree images in an automatic way or to interactively explore single trees. Moreover, the ETE toolkit is not only limited to large scale analyses, as it can be used to easily develop specific tree analysis methods for single trees.
The purpose of this course is to provide an introduction to the analysis of phylogenetic trees. It will cover a broad range of tasks that are usually required in any phylogenomic analysis: tree rooting, prediction of orthology and paralogy relationships, tree annotation, calculating distances among sequences or species, tree pruning, trees comparison, and tree visualization. The use of large scale phylogenomic resources, such as PhylomeDB or Ensembl Compara, will be also tackled through examples and exercises. This course will be mostly practical and will be focused on solving real life examples.

LOCATION:
Oerias, Portugal

MORE INFO AND APPLICATION:
http://gtpb.igc.gulbenkian.pt/bicourses/ETE10
http://gtpb.igc.gulbenkian.pt/bicourses/ETE10/application.html

Organized by The Gulbenkian Training Programme in
Bioinformatics (GTPB) and Gabaldon's lab at CRG