Whole Mouse Brain taxonomy (CCN20230722)

Atlas of the whole mouse brain.

Publication: https://doi.org/10.1038/s41586-023-06812-z
Dataset: https://allen-brain-cell-atlas.s3.us-west-2.amazonaws.com/index.html#metadata/WMB-taxonomy/20231215/
PURL: https://purl.brain-bican.org/taxonomy/CCN20230722

Curate your taxonomy in 3 simple steps:

• Whole Mouse Brain taxonomy (CCN20230722)
  • Get Taxonomy Development Tools
  • Load your data
  • Browse

Get Taxonomy Development Tools

Pull the latest TDT docker image via following the steps defined in the project GitHub Container Registry.

docker pull ghcr.io/brain-bican/taxonomy-development-tools:latest

Load your data

Place your data (ex. AIT115_annotation_sheet.tsv) and configuration file (ex. ingestion_config.yaml) into your project's input_data folder.

Run following command in your project root folder to ingest your data files:

bash ./run.sh make load_data

Browse

Run following command in your project root folder to run the online data editor:

bash ./run.sh make serve

This command will print a set of logs including a log like nanobot::serve: listening on 0.0.0.0:3000. This means your web editor is ready, and you can start editing your data.

You can start browsing web taxonomy editor from: http://localhost:3000/table

For further details see Taxonomy Development Tools Documentation