Python wrapper for the OHDSI R packages
Project description
python-ohdsi
Python wrappers for (some) OHDSI tools. This project has been initiated for supporting OMOP data sources in vantage6.
Make sure you have a working R environment with the OHDSI packages installed.
Building documentation
cd docs
make html
You can set the IGNORE_R_IMPORTS
environment variable to ignore the R imports
in the documentation. This is useful when you don't have the R packages
installed but want to build the documentation anyway.
TODO
Packages to be wrapped:
- Capr
- CirceR
- CohortGenerator
- SqlRender
- DatabaseConnector
- FeatureExtraction
- FeatureExtractionApi (custom package to wrap FeatureExtraction module in a REST API)
Release packages: ohdsi-circe
, ohdsi-capr
, ohdsi-cohortgenerator
, ohdsi-sqlrender
, ohdsi-databaseconnector
, ohdsi-featureextraction
Some notes
- installing some OHDSI packages required the
--no-multiarch
flag: INSTALL_opts=c("--no-multiarch").
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