Project for automatic classification of neurons per anatomical region in entire brain slices marked with the biomarker NeuN.
This project uses Pixi for managing a reproducible environment.
First, install pixi:
curl -sSL https://prefix.dev/install.sh | bash
Install the environment: pixi install
Activate the environment: pixi shell
# Dataset for one mouse available at
https://search.kg.ebrains.eu/instances/13b53eef-867d-4546-a435-d4819ae17734
# Run neuron classification
python test_classification_model.py
# Run region segmentation
python test_region_reconstruction.py
# CellGT training
python training_model.py