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neurospin/Champollion_demo

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App README

Champollion Demo

Generate cortical folding embeddings from T1 MRI brain scans using pre-trained Barlow Twins models.

Project website: https://www.neurospin.fr/champollion_pipeline

About this demo

This is a demonstration Space for quick testing, running on 2 CPU cores. Processing a single T1 MRI subject takes approximately 1 hour end-to-end due to hardware limitations.

Upload a .nii.gz T1 MRI file and the pipeline will:

  1. 1.Extract sulcal graphs using Morphologist
  2. 2.Generate sulcal region crops with cortical_tiles
  3. 3.Produce 56 embedding vectors (28 regions x 2 hemispheres) using Champollion V1
  4. 4.Visualize your subject projected onto a UKBioBank reference population via UMAP

Run at scale

This demo is limited to 2 CPU cores. For batch processing or production use, install the full pipeline on your own infrastructure where it can leverage all available CPUs and GPUs:

ResourceDescription
Project websiteDocumentation, tutorials, and project overview
champollion_pipelineFull pipeline — install locally for at-scale processing
neurospin/Champollion_V1Pre-trained model weights (56 Barlow Twins models)
bash
git clone https://github.com/neurospin/champollion_pipeline.git
cd champollion_pipeline
pixi run install-all

See the pipeline README for the full step-by-step guide.