Getting Started

Install

• Clone the repo
• Create the relevant conda env or use the Docker for the module you want to run
• See each module's Overview page for exact steps

Important

The modules are independent of each other. You can run any module on its own. Please follow the README.md file for each module in the GitHub. The README.md file contains most up-to-date instructions.

Our Modules for Connectome mapping, enrichment and visualization

• EM Mask Generation. This is a module to generate brain/resin masks from 3D EM volumes.
• Local Shape Descriptors (Neuron Segmentation)
• Synapse Detection
  • Synful
  • SimpSyn
• Mitochondria Segmentation
• Neurotransmitter Classification
• Proofreading
• Visualization (Napari, Neuroglancer)