Skip to content
Phenex is an application for annotating character matrix files with ontology terms using the Entity-Quality syntax for describing phenotypes. http://phenoscape.org/wiki/Phenex
Java
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Failed to load latest commit information.
.settings
build-lib
launchers
lib
logging-dev
src Added panel with browser links to presence/absence supporting states …
test/org/phenoscape
testfiles
.classpath
.gitignore
.project
LICENSE
README.md
build.xml
log4j.xml
phenoxml.xsd

README.md

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.

History

Phenex has been initially developed as part of the Phenoscape project. It was influenced by and builds on Phenote and OBO-Edit from the OBO project.

License

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.

Something went wrong with that request. Please try again.