genieBPC: Project GENIE BioPharma Collaborative Data Processing Pipeline

The American Association Research (AACR) Project Genomics Evidence Neoplasia Information Exchange (GENIE) BioPharma Collaborative represents a multi-year, multi-institution effort to build a pan-cancer repository of linked clinico-genomic data. The genomic and clinical data are provided in multiple releases (separate releases for each cancer cohort with updates following data corrections), which are stored on the data sharing platform 'Synapse' <>. The 'genieBPC' package provides a seamless way to obtain the data corresponding to each release from 'Synapse' and to prepare datasets for analysis.

Version: 1.0.0
Depends: R (≥ 3.4)
Imports: cli (≥ 2.5.0), dplyr (≥ 1.0.6), dtplyr (≥ 1.1.0), httr, jsonlite, purrr (≥ 0.3.4), rlang (≥ 1.0.0), stringr (≥ 1.4.0), sunburstR, tibble (≥ 3.1.2), tidyr
Suggests: covr (≥ 3.5.1), ggplot2 (≥ 3.3.5), gt (≥ 0.3.0), gtsummary (≥ 1.5.2), knitr (≥ 1.33), magrittr (≥ 2.0.1), plotly (≥ 4.10.0), rmarkdown (≥ 2.8), testthat (≥ 3.0.0), markdown, spelling
Published: 2022-08-14
Author: Jessica A. Lavery ORCID iD [aut, cre], Michael A. Curry ORCID iD [aut], Samantha Brown ORCID iD [aut], Karissa Whiting ORCID iD [aut], Axel Martin [aut], Daniel D. Sjoberg ORCID iD [ctb]
Maintainer: Jessica A. Lavery <laveryj at>
License: MIT + file LICENSE
NeedsCompilation: no
Language: en-US
Materials: README NEWS
CRAN checks: genieBPC results


Reference manual: genieBPC.pdf
Vignettes: Tutorial: GENIE BPC Data Structure
Tutorial: create_analytic_cohort
Tutorial: drug_regimen_sunburst
Tutorial: pull_data_synapse
Tutorial: select_unique_ngs


Package source: genieBPC_1.0.0.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): genieBPC_1.0.0.tgz, r-oldrel (arm64): genieBPC_1.0.0.tgz, r-release (x86_64): genieBPC_1.0.0.tgz, r-oldrel (x86_64): genieBPC_1.0.0.tgz


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