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://github.com/flyconnectome/fafbseg-py.git

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

pip3 install git+git://github.com/schlegelp/pymaid@master
pip3 install cloud-volume
pip3 install inquirer
pip3 install ipython

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

Warning

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

Contents

Table of Contents