Python Tools to Work with FAFB Autoseg

FAFBseg-py is a set of Python tools to work with neuron skeletons produced from Google’s flood filling dataset hosted on a CATMAID server.

Quick Start

To install the latest version of fafbseg-py with pip.

pip3 install git+git://

Then make sure to install required dependencies pymaid, cloudvolume, inquirer and iPython:

pip3 install git+git://
pip3 install cloud-volume
pip3 install inquirer
pip3 install ipython

Now have a look at the examples or the API to get started.


fafbseg has not been tested on Windows and is unlikely to work off the bat. I highly recommend using either OSX or linux.


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