notebooks for working with EM data

1. Intro_to_python.ipynb

• How to install anaconda
• How to set up virtual environments
• Links to packages necessary for working with EM data

2. json_management.ipynb

• A class for managing a list of json states.
• **Important: If you load a json state and keep working in it, you need to save it again when you are finished. Use StateManager.update_state to do this.

3. annotation_management.ipynb

• An outline of how to upload data to the annotation engine. API tokens come from the wiki I sent you.

4. MN_statebuilder_example.ipynb

• An outline of how to build custom neuroglancer states using the statebuilder.

5. statebuilder_examples.ipynb

• Adapted from the Allen Institute. More examples for data driven state building.

6. skeletonization.ipynb

• Methods for skeletonization. Uses skeletor and meshparty.

7. synaptic_distribution_analysis.ipynb

• Methods for doing analyses on synapses using MeshWork