CRAN/E | genieBPC

genieBPC

Project GENIE BioPharma Collaborative Data Processing Pipeline

Installation

About

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.

genie-bpc.github.io/genieBPC/
Bug report File report

Key Metrics

Version 1.1.0
R ≥ 3.4
Published 2023-03-03 19 days ago
Needs compilation? no
License MIT
License File
CRAN checks genieBPC results
Language en-US

Downloads

Last 24 hours 27 -40%
Last 7 days 144 +44%
Last 30 days 386 +23%
Last 90 days 982 -33%
Last 365 days 3.086

Maintainer

Maintainer

Jessica A. Lavery

laveryj@mskcc.org

Authors

Jessica A. Lavery

aut / cre

Michael A. Curry

aut

Samantha Brown

aut

Karissa Whiting

aut

Hannah Fuchs

aut

Axel Martin

aut

Daniel D. Sjoberg

ctb

Material

README
NEWS
Reference manual
Package source

Vignettes

Tutorial: GENIE BPC Data Structure
Tutorial: create_analytic_cohort
Tutorial: drug_regimen_sunburst
Tutorial: pull_data_synapse
Tutorial: select_unique_ngs

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

genieBPC archive

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