Examples of using Neuroglancer with Jupyter

Original examples are from the 2019 NSF NeuroNex 3DEM Workshop in Austin, TX.

Binder

Set up Jupyter in a new virtual environment (python/pip)

Note: numpy must be installed before cloud-volume.

python3 -m venv ENV
source ENV/bin/activate
pip install numpy
pip install -r reqs.txt
jupyter-lab

Set up Jupyter in a new virtual environment (conda)

conda env create -f environment.yml --name neuroglancer-demo
conda activate neuroglancer-demo
jupyter-lab

References

• Neuroglancer Repo
  • ... Python Examples