Building trustworthy computational infrastructure for biomedical discovery.
CNAG Biomedical Informatics is a research software laboratory within CNAG's Biomedical Genomics Group. We develop open-source infrastructure that connects genomic, phenotypic, clinical, and imaging data with reproducible analysis and trustworthy AI.
Each project solves a focused problem while contributing to a shared biomedical research platform. Project names open their documentation.
- Convert-Pheno interconverts biomedical and phenotypic data standards.
- beacon2-cbi-tools validates and ingests data for GA4GH Beacon v2.
- OMOP CSV Validator checks OMOP-CDM CSV datasets before ingestion.
- Pheno-Ranker compares and ranks interoperable phenotypic profiles.
- ClarID-Tools generates and validates schema-driven biomedical identifiers.
- dicomqc audits DICOM metadata de-identification and research-release readiness.
- CBIcall runs configuration-driven genomic variant-calling workflows.
- Omics Warehouse (OmicsDM) stores and shares processed omics data with associated pheno-clinical information.
Biomedical Research Navigator is a clinical and assay workspace for translational research teams, under active development. It brings authorized datasets, cohort building, phenotype ranking, and curated analyses into a provenance-aware environment, with policy-controlled access to approved local or cloud language models.
- Standards first. Established biomedical standards and transparent data models are shared interfaces across the toolkit.
- Reproducible by default. Structured configuration and reusable workflows make analyses easier to inspect and repeat.
- Built to last. We invest in maintainable infrastructure rather than isolated prototypes.
- Open for reuse. Our software and documentation are developed in the open.
Our work grows through the ELIXIR community and European collaborations in interoperable biomedical data, federated analytics, translational informatics, and precision medicine, including 3TR, HEREDITARY, and PRECISESADS.
- ClarID
- Beacon v2 Reference Implementation
- OMOP CDM to Beacon v2 Interoperability
- Convert-Pheno
- Pheno-Ranker
Our goal is practical: help researchers spend less time integrating data and more time answering biological and clinical questions.
