Repositories list

• bgee_web

  Public
  React code of the Bgee frontend

  reactjsbiologygene-expression

  reactjsbiologygene-expression

  JavaScript

  •

  Creative Commons Zero v1.0 Universal

  •55 forks•11 star•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• sparql-examples

  Public
  A set of SPARQL examples that are used in different SIB resources

  HTML

  •

  Other

  •3636 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• bgee_apps

  Public
  Source code of the Java Bgee applications

  javabiologygene-expression

  javabiologygene-expression

  Java

  •

  Creative Commons Zero v1.0 Universal

  •11 fork•22 stars•00 issues•11 pull request•Updated Apr 16, 2026Apr 16, 2026

• bgee_pipeline

  Public
  Source code of the Bgee pipeline used to build the Bgee database

  pythonjavagene+ 11

  pythonjavagenerna-seqpipelinemakefilebiologyperlgene-expressionexpression+ 4

  Perl

  •

  Creative Commons Zero v1.0 Universal

  •33 forks•1212 stars•00 issues•00 pull requests•Updated Apr 2, 2026Apr 2, 2026

• BgeeCall

  Public
  Source code of the BgeeCall R package, for automatic RNA-Seq present/absent gene expression calls generation

  rna-seqbiologygene-expression+ 5

  rna-seqbiologygene-expressionscrna-seqrna-seq-librariesintergenic-regionsgene-levelpresent-absent-calls

  R

  •

  GNU General Public License v3.0

  •11 fork•44 stars•11 issue•00 pull requests•Updated Mar 29, 2026Mar 29, 2026

• BgeeDB_R

  Public
  Source code of the R packge BgeeDB to use data from the Bgee database

  bioinformaticsrna-seqscrna-seq+ 2

  bioinformaticsrna-seqscrna-seqsingle-cellenrichment-analysis

  R

  •

  GNU General Public License v3.0

  •66 forks•1616 stars•11 issue•11 pull request•Updated Oct 8, 2025Oct 8, 2025

• workshop_bc2

  Public
  HTML

  •

  Creative Commons Zero v1.0 Universal

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 16, 2025Sep 16, 2025

• Biodiversity-Bioinformatics

  Public
  Biodiversity Bioinformatics

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 13, 2025Aug 13, 2025

• expression-annotations-documents

  Public
  Bgee Expression Annotations documentation

  Jupyter Notebook

  •11 fork•11 star•00 issues•00 pull requests•Updated Mar 19, 2025Mar 19, 2025

• bgee

  Public
  Project hosting resources used for developing Bgee.

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• anatomical-similarity-annotations

  Public
  Project hosting resources used for annotating relations of similarity between anatomical structures

  Makefile

  •

  Creative Commons Zero v1.0 Universal

  •22 forks•22 stars•1818 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• Wikidata_BgeeDB-bot

  Public
  The BgeeDB Wikidata bot

  Python

  •

  Creative Commons Zero v1.0 Universal

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• reference_intergenic_standalone

  Public
  standalone scripts allowing to generate reference intergenic sequences for species not present in Bgee

  R

  •11 fork•22 stars•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• homology-ontology

  Public
  Home for the ontology of homology and related concepts in biology

  biologyontologyuberon+ 2

  biologyontologyuberonhomologyobofoundry

  Makefile

  •

  Creative Commons Zero v1.0 Universal

  •11 fork•00 stars•22 issues•11 pull request•Updated Feb 3, 2025Feb 3, 2025

• confidence-information-ontology

  Public
  Repository of the Confidence Information Ontology (CIO)

  ontologyobofoundryconfidence-score

  ontologyobofoundryconfidence-score

  Perl

  •

  Creative Commons Zero v1.0 Universal

  •22 forks•55 stars•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• IQRray

  Public
  A new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics

  R

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 3, 2025Feb 3, 2025

• AnnotTool

  Public
  VBA scripts for Bgee Annotation Tool

  VBA

  •11 fork•11 star•00 issues•00 pull requests•Updated Jan 15, 2024Jan 15, 2024

• Methods_RNASeq_expression_calls

  Public
  RNASeq call method comparison

  R

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 5, 2022Apr 5, 2022