Cancer Deep Phenotype Extraction (DeepPhe) Project
This documentation describes v0.3.0 of
- the base DeepPhe system, which
- and DeepPhe Viz, for visualizing the cancer patient summaries generated by the DeepPhe system.
The system has been tested using documents from three cancer domains:
- Breast Cancer
- Ovarian Cancer
- Malignant Melanoma
Here is a pictorial example of DeepPhe processing five documents for a single patient, and summarizing the cancer information from the five documents. Some of the attributes, such as the tumor size and treatment, show future direction of DeepPhe beyond version 0.3.0.
- Name the files you would like to process
- Run the DeepPhe system
- View the results using DeepPhe-Viz
- This release of DeepPhe uses neo4j 3.5.x. WARNING - do not simply download the latest version of neo4j.
Visit the DeepPhe wiki for more.
DeepPhe is provided under an Academic Software Use Agreement
Refer to that agreement for information about requesting the use of the Software for commercial purposes.
DeepPhe includes portions of the HemOnc.org ontology. Refer to HemOnc.org regarding the licensing of the HemOnc.org ontology.
DeepPhe includes portions of the NCI Thesaurus (NCIt).
Contact / Help
Please drop us a note if you obtain the code, by posting to the DeepPhe group.
Metrics on downloads and usage could help us with funding future enhancements.
For questions, contact us via the DeepPhe group.