Repositories list

• whole_mouse_brain_taxonomy

  Public
  Atlas of whole mouse brain

  HTML

  •0•0•9•1•Updated Dec 9, 2025Dec 9, 2025

• metadata-schemas

  Public
  A repository for BICAN metadata schemas and their development.

  metadataschemadata-management

  3•5•9•3•Updated Dec 5, 2025Dec 5, 2025

• basal_ganglia_consensus_taxonomy

  Public
  HMBA basal ganglia consensus taxonomy

  HTML

  •0•0•0•0•Updated Nov 24, 2025Nov 24, 2025

• bkbit

  Public
  Brain Knowledge Interaction Toolkit

  Python

  •

  Apache License 2.0

  •6•1•7•3•Updated Nov 19, 2025Nov 19, 2025

• models

  Public
  BICAN data models

  Python

  •5•3•12•2•Updated Nov 16, 2025Nov 16, 2025

• developing_human_brain_atlas_ontology

  Public
  An application ontology built by combining ontologised versions of the Allen Institute Developing Human Brain Atlas (DHBA) StructureGraph mapped to Uberon.

  Makefile

  •0•2•2•2•Updated Nov 13, 2025Nov 13, 2025

• mouse_brain_atlas_ontology

  Public
  An application ontology built by combining ontologised versions of the Allen Institute Mouse Brain Atlas (MBA) StructureGraph mapped to Uberon.

  Makefile

  •0•0•5•0•Updated Oct 29, 2025Oct 29, 2025

• purl.brain-bican.org

  Public
  A system for managing BICAN PURLs

  Python

  •

  MIT License

  •4•0•2•2•Updated Jul 4, 2025Jul 4, 2025

• taxonomy-development-tools-actions

  Public
  Taxonomy Development Tools utility operations.

  Python

  •

  Apache License 2.0

  •0•0•0•1•Updated Jun 30, 2025Jun 30, 2025

• bican_application_ontology

  Public
  Application ontology for BRAIN Initiative Cell Atlas Network (BICAN)

  owlontologyopen-science

  Makefile

  •0•0•2•0•Updated May 30, 2025May 30, 2025

• human-neocortex-middle-temporal-gyrus

  Public
  Cellular and molecular characterization of human cortical cytoarchitecture. Dissection: Middle temporal gyrus.Facilitated by Taxonomy Development Tools.

  HTML

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• human-brain-cell-atlas_v1_non-neuronal

  Public
  Human Brain Cell Atlas Taxonomy v1.0 (Non-neuronal) (CS202210140), facilitated by Taxonomy Development Tools.

  HTML

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• human-brain-cell-atlas_v1_neurons

  Public
  Human Brain Cell Atlas v1.0 Taxonomy (Neurons) (CS202210140), facilitated by Taxonomy Development Tools.

  HTML

  •1•0•1•0•Updated May 19, 2025May 19, 2025

• basal_ganglia_macaque_taxonomy

  Public
  HTML

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• basal_ganglia_human_taxonomy

  Public
  HTML

  •0•0•0•0•Updated May 19, 2025May 19, 2025

• taxonomy-development-tools

  Public
  Tools to build and edit Cell Annotation Schema taxonomies.

  Python

  •

  Apache License 2.0

  •1•3•39•0•Updated May 19, 2025May 19, 2025

• developing_mouse_brain_atlas_ontology

  Public
  An application ontology built by combining ontologised versions of the Allen Institute Developing Mouse Brain Atlas (DMBA) StructureGraph mapped to Uberon.

  Makefile

  •0•0•1•0•Updated Feb 10, 2025Feb 10, 2025

• human_brain_atlas_ontology

  Public
  An application ontology built by combining ontologised versions of the Allen Institute Human Brain Atlas (HBA) StructureGraph mapped to Uberon.

  Makefile

  •0•1•2•0•Updated Feb 10, 2025Feb 10, 2025

• BICAN_bmark

  Public
  R

  •0•1•0•0•Updated Feb 4, 2025Feb 4, 2025

• scao

  Public
  Spinal Cord Atlas Ontology

  Makefile

  •

  MIT License

  •0•0•0•0•Updated Oct 25, 2024Oct 25, 2024

• knowledgegraph-jsonld-files

  Public
  some default

  0•0•0•0•Updated Jul 17, 2024Jul 17, 2024

• kbhub

  Public
  Infrastructure and code for the knowledgebase jupyterhub

  Jinja

  •

  Other

  •25•0•0•0•Updated Jun 4, 2024Jun 4, 2024

• techniques_ontology

  Public
  Makefile

  •0•0•0•0•Updated Jun 4, 2024Jun 4, 2024

• primate_brain_atlas_ontology

  Public
  An application ontology built by combining ontologised versions of the Allen Institute Primate Brain Atlas (PBA) StructureGraph mapped to Uberon.

  Makefile

  •0•0•0•0•Updated Apr 30, 2024Apr 30, 2024

• design-documents

  Public
  1•0•0•2•Updated Mar 13, 2024Mar 13, 2024

• tdt-cellxgene-crawler

  Public
  Generates taxonomy repositories for Taxonomy Development Tools based on datasets published via CellXGene.

  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Mar 11, 2024Mar 11, 2024

• ansrs-schema

  Public
  LinkML schema/data model for ANSRS

  Python

  •

  MIT License

  •1•1•1•0•Updated Feb 7, 2024Feb 7, 2024

• Metadata-Huddle-2023

  Public
  Python

  •1•1•0•0•Updated Jan 31, 2024Jan 31, 2024

• CCN2

  Public archive
  Developing a successor to the CCN taxonomy system

  Apache License 2.0

  •0•0•0•0•Updated Jan 2, 2024Jan 2, 2024

• spatial-transcriptomics-segmentation

  Public
  0•0•0•0•Updated Nov 2, 2023Nov 2, 2023