A package for automated deep-learning 3D image segmentation algorithms for connectomic brain mapping. Developed for X-Ray Nanoholography data.
- Free software: Apache 2.0 License
Install Rust and Cargo via RustUp:
curl https://sh.rustup.rs -sSf | sh
Install MongoDB:
curl -fsSL https://pgp.mongodb.com/server-6.0.asc | sudo gpg -o /usr/share/keyrings/mongodb-server-6.0.gpg --dearmor
And initialize a MongoDB server in a screen on your machine:
screen
mongod
Install graph_tool
conda install -c conda-forge -c ostrokach-forge -c pkgw-forge graph-tool
Install autoseg
:
pip install git+https://github.com/brianreicher/autoseg.git
This package builds upon segmentation techniques & algorithms developed by Arlo Sheridan, Brian Reicher, Jeff Rhoades, Vijay Venu, and William Patton.