ETE: a python Environment for Tree Exploration

Background: Many bioinformatics analyses, ranging from gene clustering to phylogenetics, produce hierarchical trees as their main result. These are used to represent the relationships among different biological entities, thus facilitating their analysis and interpretation. A number of standalone programs are available that focus on tree visualization or that perform specific analyses on them. However, such applications are rarely suitable for large-scale surveys, in which a higher level of automation is required. Currently, many genome-wide analyses rely on tree-like data representation and hence there is a growing need for scalable tools to handle tree structures at large scale. Results: Here we present the Environment for Tree Exploration (ETE), a python programming toolkit that assists in the automated manipulation, analysis and visualization of hierarchical trees. ETE libraries provide a broad set of tree handling options as well as specific methods to analyze phylogenetic and clu...

• Type: Journal
• Year: 2010
• Where: BMCBI
• Authors: Jaime Huerta-Cepas, Joaquín Dopazo, Toni Gabaldón
• Keywords: Bioinformatics Analyses, BMCBI 2010, Hierarchical Trees, Tree