If you want to access the LOINC to HPO mapping, refer to loinc2hpoAnnotation repo.
If you want to contribute to LOINC to HPO mapping, read below.
Java library to map LOINC-encoded test results to Human Phenotype Ontology.
There are currently two modules, a core module and a graphical user interface (GUI) module. loinc2hpogui is a JavaFX app that intends to help with biocuration of LOINC code to HPO term mappings. To build and run the GUI, use the following command.
$ mvn clean package $ java -jar loinc2hpogui/target/Loinc2HpoGui-jar-with-dependencies.jar
To run the library code, enter the following
$ java -jar loinc2hpo-core/target/Loinc2HpoLib.jar download
This will download the hp.obo file (You need to manually download the LOINC Core Table file). There is a demo function that currently doesn't do anything
$ java -jar loinc2hpo-core/target/Loinc2HpoLib.jar demo
Please refer to http://loinc2hpo.readthedocs.io/en/latest/.
spring framework app
We are developing a separate app that will specialize in one functionality of this app - converting FHIR observations into HPO terms. The new app will be coded with the Spring framework and we strive to achieve enterprise-level quality. Please refer to the app with the following link: https://github.com/OCTRI/fhir2hpo
We gratefully acknowledge funding by NCATS (CD2H project), 1U24TR002306 A NATIONAL CENTER FOR DIGITAL HEALTH INFORMATICS INNOVATION