connectome-interpreter

This package is intended to be used for interpreting connectomics data.

To install:

pip install connectome-interpreter

Documentation here (with some text snippets explaining various things).

Example notebooks

Full Adult Fly Brain

Data obtained from Dorkenwald et al. 2023 and Schlegel et al. 2023. To visualise the neurons, you can use this url: https://tinyurl.com/flywire783. By using the connectivity information, you agree to follow the FlyWire citation guidelines and principles.

• central brain, single-neuron level (recommended. Shows a variety of capabilities)
• central brain, cell type level
• right hemisphere optic lobe, single-neuron level

MaleCNS

Data obtained from neuPrint and Nern et al. 2024, with the help of neuprint-python.

• Optic lobe, single-neuron level

Larva

Data from Winding et al. 2023. You can also e.g. visualise the neurons in 3D in catmaid.

• single-neuron level

Notes

• Pre-processed connectomics data (and scripts used for pre-processing) are here, in scipy.sparse.matrix (.npz) format for the adjacency matrices; and in .csv for the metadata.
• For dataset requests / feature requests / feedback, please make an issue or email me at yy432atcam.ac.uk :).