Phenex - Ontological Annotation of Phenotypic Diversity
Phenex is an application for annotating character matrix files with ontology terms. Character states can be annotated using the Entity-Quality syntax for ontologically describing phenotypes. In addition, taxon entries can be annotated with identifiers from a taxonomy ontology. Phenex saves ontology annotations alongside traditional character matrix data using the new NeXML format standard for evolutionary data.
More information, including documentation of system requirements, installation, and usage, can be found at the Phenex website.
Phenex source code can be used, modified, and distributed under the terms of the MIT License. Please see the file LICENSE for details.
How to cite
If you use Phenex in your research, please cite the following publication:
Balhoff, James P., Wasila M. Dahdul, Cartik R. Kothari, Hilmar Lapp, John G. Lundberg, Paula Mabee, Peter E. Midford, Monte Westerfield, and Todd J. Vision. 2010. Phenex: Ontological Annotation of Phenotypic Diversity. PLoS ONE 5:e10500. http://dx.doi.org/10.1371/journal.pone.0010500.