Repositories list

• docker

  Public
  BridgeDb Docker

  dockerdocker-imageidentifiers+ 2

  dockerdocker-imageidentifiersbridgedbbridgedb-docker

  Shell

  •4•5•11•0•Updated Mar 23, 2026Mar 23, 2026

• BridgeDb

  Public
  The BridgeDb Library source code

  javabioinformaticsdatabase+ 5

  javabioinformaticsdatabaseurimysql-backendhacktoberfestbridgedbidentifier-mapping

  Java

  •

  Apache License 2.0

  •22•35•32•5•Updated Mar 21, 2026Mar 21, 2026

• datasources

  Public
  Repository with the BridgeDb data source.

  registrylife-sciencesbridgedb

  registrylife-sciencesbridgedb

  Python

  •

  Creative Commons Zero v1.0 Universal

  •7•4•4•0•Updated Mar 14, 2026Mar 14, 2026

• tiwid

  Public
  This is where identifiers die

  hacktoberfestbridgedb

  hacktoberfestbridgedb

  Python

  •

  Creative Commons Zero v1.0 Universal

  •4•4•6•0•Updated Mar 3, 2026Mar 3, 2026

• bridgedb.github.io

  Public
  Website of the BridgeDb project

  elixiridentifier

  elixiridentifier

  HTML

  •4•0•8•0•Updated Feb 2, 2026Feb 2, 2026

• data

  Public
  Repository to mimic the old data/gene_database/ API

  Groovy

  •3•3•4•0•Updated Jan 3, 2026Jan 3, 2026

• create-bridgedb-metabolites

  Public
  Create BridgeDb identity mapping files from HMDB, ChEBI, and Wikidata

  metabolomicsidentifiers

  metabolomicsidentifiers

  Groovy

  •

  Other

  •7•4•13•0•Updated Jan 3, 2026Jan 3, 2026

• BridgeDbWebservice

  Public
  BridgeDb Webservice

  Java

  •

  Apache License 2.0

  •3•2•18•0•Updated Nov 9, 2025Nov 9, 2025

• BridgeDbR

  Public
  Bioconductor R package for BridgeDb

  proteinsgenesidentifiers+ 4

  proteinsgenesidentifierslife-sciencesbioconductor-packagebridgedbmetabolites

  R

  •8•4•13•0•Updated Nov 9, 2025Nov 9, 2025

• create-bridgedb-genedb

  Public
  Example of script to query BioMart, parse and create a BridgeDb database

  geneensemblidentifier-mapping

  geneensemblidentifier-mapping

  Java

  •

  Apache License 2.0

  •4•4•5•0•Updated Oct 6, 2024Oct 6, 2024

• create-bridgedb-genedb-config

  Public
  Shell

  •

  MIT License

  •2•1•2•0•Updated Oct 3, 2024Oct 3, 2024

• BridgeDbConfig

  Public
  Java

  •

  Apache License 2.0

  •1•1•2•1•Updated Dec 6, 2023Dec 6, 2023

• BridgeDb-Examples

  Public
  Java

  •0•0•0•0•Updated Dec 2, 2023Dec 2, 2023

• Wikidata2Bridgedb

  Public
  Creation of BridgeDb mapping databases from Wikidata

  wikidatabridgedbcovid-19

  wikidatabridgedbcovid-19

  Java

  •

  Apache License 2.0

  •2•0•3•1•Updated Nov 20, 2023Nov 20, 2023

• swagger

  Public
  Swagger file for bridgedbwebservice

  HTML

  •3•0•6•0•Updated Sep 29, 2023Sep 29, 2023

• nwo-hackathon-2023

  Public
  Creative Commons Zero v1.0 Universal

  •0•0•1•0•Updated Feb 10, 2023Feb 10, 2023

• create-nanomaterial-mappings

  Public
  Groovy

  •0•0•0•0•Updated Feb 9, 2023Feb 9, 2023

• bridgedbjs

  Public
  JS client for BridgeDb.org ID mapping framework webservices

  JavaScript

  •

  Apache License 2.0

  •1•4•8•25•Updated Jan 7, 2023Jan 7, 2023

• bridgedb-webservice

  Public archive
  BridgeDb Webservice

  Java

  •

  Apache License 2.0

  •1•1•0•0•Updated Dec 12, 2022Dec 12, 2022

• create-bridgedb-secondary2primary

  Public
  Java

  •

  Apache License 2.0

  •4•0•0•0•Updated Jul 30, 2022Jul 30, 2022

• webservice.bridgerest

  Public
  Java

  •0•0•0•0•Updated May 4, 2022May 4, 2022

• webservice.biomart

  Public
  Biomart webservice plugin from org.bridgedb.webservice.biomart

  Java

  •0•0•0•0•Updated May 4, 2022May 4, 2022

• InteractionDB

  Public
  A BridgeDb Derby database to map interactions from different databases to each other. This database can be used to annotate interactions in PathVisio and Wikipa…

  Java

  •2•2•2•1•Updated Apr 1, 2022Apr 1, 2022

• BridgeDb-matlab

  Public
  Functions to use the BridgeDb webservice in Matlab. BridgeDb is a tool for identifier mapping.

  matlabbridgedbidentifier-mapping

  matlabbridgedbidentifier-mapping

  Python

  •

  Other

  •3•1•1•0•Updated Apr 1, 2022Apr 1, 2022

• stories

  Public
  BridgeDb Stories explain the various uses cases

  4•0•0•1•Updated Mar 31, 2022Mar 31, 2022

• configManagement

  Public
  Config management for BridgeDb

  Perl

  •

  MIT License

  •0•1•0•0•Updated Feb 16, 2021Feb 16, 2021

• vocabularies

  Public
  Source files for the BridgeDb ontology

  HTML

  •2•0•7•0•Updated Sep 18, 2020Sep 18, 2020

• bridgedb.cytoscape

  Public
  BridgeDb App for Cytoscape 3

  Java

  •7•0•0•0•Updated Sep 10, 2020Sep 10, 2020

• Validator

  Public
  VoID Validator

  Java

  •

  Apache License 2.0

  •2•0•0•0•Updated Nov 21, 2019Nov 21, 2019

• IdentityMappingService

  Public
  The Identity Mapping Service to combine BridgeDb and the Validator

  Java

  •3•0•0•0•Updated Nov 21, 2019Nov 21, 2019