This repo is dedicated to the integration of various clinical terminologies and ontologies into Mondo. For more details see the documentation.
Work on the Mondo Source Ingest is funded by the NHGRI Phenomics First Grant 1RM1HG010860-01.
Python is a dev dependency. It's not needed to run the docker containers, but needed for local development situations / debugging.
latest
or dev
:
docker pull obolibrary/odkfull:latest
docker pull obolibrary/odkfull:dev
sh run.sh make build-mondo-ingest
A variety of reports are committed as static files in src/ontology/reports/
, but some additional reports get rendered
into markdown pages as noted below.
The mapping progress report consists lists of all unmapped terms fo each ontology, as well as a table of statistics showing total number of terms, excluded terms, deprecated terms, and unmapped terms.
The mapped deprecated terms page contains a table of statistics showing total number of deprecated terms that have existing xrefs in Mondo, for each ontology. There is also a link to a page for each ontology which shows the term IDs and their corresponding mapped Mondo ID(s).
The migrate page contains a table of statistics showing of terms ready for migration / integration into Mondo.