Leaders:
Robert J. Autry (Heidelberg), Ivo Buchhalter (Heidelberg), Patrick Kemmeren (Utrecht)
Abstract:
Work package 3 aims to establish a federated and harmonized bioinformatics pipeline and annotation processes to create a uniformly processed dataset from the individual precision oncology (PrecOnc) programs. An additional goal is the establishment of extract-transform-load (ETL) pipelines to automatically update the secure processed data repository and the aggregated ‘user-ready’ data being developed for use in WP5 in a timely manner.
Tasks:
- Assessment of existing bioinformatics pipelines at all participating sites
- Develop a harmonized consensus pipeline that is containerized and transferrable amongst all sites
- Establishing a pipeline validation procedure/quality management for accreditation purposes