Convert-Pheno
Clinical and phenotypic data conversion across standard data models.
Convert between Beacon v2 Models, Phenopackets v2, OMOP-CDM, REDCap, CDISC-ODM, CSV, and related exchange formats through a command-line tool, Perl module, Python binding, and HTTP(s) APIs.
Convert-PhenoInputBFF · PXF · OMOP · REDCap · CSV
→
Center modelBFF
→
OutputBFF · PXF · OMOP · CSV
individualsbiosamplesdatasetscohorts
Setup
Install
Containerized and non-containerized setup paths, including optional OMOP resources.
FormatsChoose
Supported input and output formats, including entity-aware BFF output.
CommandsRun the CLI
Copy-paste commands for PXF, OMOP-CDM, REDCap, CSV, CDISC-ODM, and BFF conversions.
Clinical DBConvert OMOP
OMOP-CDM SQL or CSV input to Beacon and Phenopackets outputs.
DevelopersCall from Code
Use the Perl API, Python binding, or HTTP(s) API only when you need programmatic access.