ORscraper: Extract Information from Clinical Reports from 'Oncomine Reporter' and NCBI 'ClinVar'
Abstract
Clinical reports generated by 'Oncomine Reporter' software contain critical data in unstructured PDF format, making manual extraction time-consuming and error-prone. 'ORscraper' provides a coherent suite of functions to automate this process, allowing researchers to parse reports, identify key biomarkers, extract genetic variant tables, and filter results. It also integrates with the NCBI 'ClinVar' API to enrich extracted data.
Fields of Study & Subjects
Biomedical Text Mining and Ontologies
Genomics and Rare Diseases
Cancer Genomics and Diagnostics
Publication details
- Publication date
- 16 January 2026
- Document type
- Dataset