ORscraper: Extract Information from Clinical Reports from 'Oncomine
Reporter' and NCBI 'ClinVar'
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
<https://www.ncbi.nlm.nih.gov/clinvar/> to enrich extracted data.
| Version: |
0.1.0 |
| Depends: |
R (≥ 4.0.0) |
| Imports: |
pdftools, stringr, readxl, rentrez |
| Suggests: |
testthat (≥ 3.0.0), rmarkdown, knitr, mockery, spelling |
| Published: |
2026-01-16 |
| DOI: |
10.32614/CRAN.package.ORscraper (may not be active yet) |
| Author: |
Samuel González 
[aut, cre],
Antonio Jesus Canepa
[ctb],
Patricia Saiz
[ctb],
María González
[ctb] |
| Maintainer: |
Samuel González <samugonz0204 at gmail.com> |
| BugReports: |
https://github.com/SamuelGonzalez0204/ORscraper/issues |
| License: |
MIT + file LICENSE |
| URL: |
https://github.com/SamuelGonzalez0204/ORscraper |
| NeedsCompilation: |
no |
| SystemRequirements: |
poppler-cpp (>= 0.73) |
| Language: |
en-US |
| Materials: |
README, NEWS |
| CRAN checks: |
ORscraper results |
Documentation:
Downloads:
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