Tools to work with the FlyWire and Google segmentations of the FAFB EM dataset. Fully interoperable with navis.

Here are just some of the things you can do with fafbseg:

• map locations or supervoxels to segmentation IDs
• load neuron meshes and skeletons
• generate high quality neuron meshes and skeletons from scratch
• query connectivity and annotations
• parse and generate FlyWire neuroglancer URLs
• transform neurons from FAFB/FlyWire space to other brains spaces (e.g. hemibrain)

FAFBseg is on readthedocs.

Install latest stable version

pip3 install fafbseg -U

Install from Github

pip3 install git+https://github.com/flyconnectome/fafbseg-py.git

If you use fafbseg for your publication, please cite the two FlyWire papers:

1. "Whole-brain annotation and multi-connectome cell typing of Drosophila" Schlegel et al., Nature (2024); doi: https://doi.org/10.1038/s41586-024-07686-5
2. "Neuronal wiring diagram of an adult brain" Dorkenwald et al., Nature (2024); doi: https://doi.org/10.1038/s41586-024-07558-y

Depending on what data you used (e.g. neurotransmitter predictions) you might need to cite additional publications. Please see the Citation Guidelines on Codex.