Package: BridgeDbR 2.23.0

Egon Willighagen

BridgeDbR: Code for using BridgeDb identifier mapping framework from within R

Use BridgeDb functions and load identifier mapping databases in R. It uses GitHub, Zenodo, and Figshare if you use this package to download identifier mappings files.

Authors:Christ Leemans <[email protected]>, Egon Willighagen <[email protected]>, Denise Slenter, Anwesha Bohler <[email protected]>, Lars Eijssen <[email protected]>, Tooba Abbassi-Daloii

BridgeDbR_2.23.0.tar.gz
BridgeDbR_2.23.0.zip(r-4.7-any)BridgeDbR_2.23.0.zip(r-4.6-any)BridgeDbR_2.23.0.zip(r-4.5-any)
BridgeDbR_2.23.0.tgz(r-4.6-any)BridgeDbR_2.23.0.tgz(r-4.5-any)
BridgeDbR_2.23.0.tar.gz(r-4.7-any)BridgeDbR_2.23.0.tar.gz(r-4.6-any)
BridgeDbR_2.23.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
BridgeDbR/json (API)

# Install 'BridgeDbR' in R:
install.packages('BridgeDbR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bridgedb/bridgedbr/issues

Uses libs:
  • openjdk– OpenJDK Java runtime, using Hotspot JIT

On BioConductor:BridgeDbR-2.23.0(bioc 3.24)BridgeDbR-2.22.0(bioc 3.23)

softwareannotationmetabolomicscheminformaticsbioconductor-packagebridgedbgenesidentifierslife-sciencesmetabolitesproteinsopenjdk

7.15 score 4 stars 49 scripts 530 downloads 4 mentions 16 exports 2 dependencies

Last updated from:930b6c083c. Checks:1 ERROR, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR147
linux-develOK266
source / vignettesOK193
linux-releaseOK177
macos-releaseOK76
macos-oldrelOK112
windows-develOK87
windows-releaseOK84
windows-oldrelOK87
wasm-releaseOK123

Exports:fullNameExistsgetAttributesgetBridgeNamesgetDatabasegetDataSourcegetFullNamegetMatchingSourcesgetOrganismCodegetPropertiesgetSystemCodeloadDatabasemapmapsregisterDataSourcesystemCodeExistsxrefExists

Dependencies:curlrJava

BridgeDbR Tutorial
Introduction | Concepts | Organisms | Data Sources | Identifier Patterns | Identifier Mapping Databases | Downloading | Loading Databases | Mapping Identifiers | Using compact resource identifiers | Mapping multiple identifiers | Metabolomics | References | Session info
Rendered fromtutorial.Rmdusingknitr::rmarkdown

Last update: 2025-08-02
Started: 2018-03-10

Secondary identifiers
Introduction | Downloading sec2pri databases | Loading the sec2pri database | Analyzing ChEBI identifiers | Conclusion | References | Session info
Rendered fromsecondary.Rmdusingknitr::rmarkdown

Last update: 2025-08-02
Started: 2025-07-29