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The ETE toolkit
A Python Environment for Tree Exploration
clustering with node validation and heatmap
A bubble tree map
Tree showing the result of an adaptation test with CodeML
A birds tree with node labeling and NCBI taxonomy lineage
A tree of life representation
Custom tree showing intron information using aligned faces
standard circular tree representation
Tree using rotated faces
Tree using BarChart faces
Per node analysis of a fungal tree of life
tree and site selection histogram
A tree of trees using TreeFace
a tree showing domain structure and taxonomic classificaiton
tree with custom annotations
PieChart tree example
A semicircular tree with dynamic node styles
Reconciled tree visualization with node images

ETE is developed as an academic free software tool. If you find ETE useful for your work, please cite:

Jaime Huerta-Cepas, Joaquín Dopazo and Toni Gabaldón. ETE: a python Environment for Tree Exploration. BMC Bioinformatics 2010, 11:24. doi:10.1186/1471-2105-11-24

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The ETE Toolkit was originally developed at the bioinformatics department of CIPF and greatly improved at the comparative genomics unit of CRG. At present, ETE is maintained by Jaime Huerta-Cepas at the Structural and Computational Biology unit of EMBL (Heidelberg, Germany).