FlyWire data access

This repository contains tutorials demonstraiting how to programmatically access the FlyWire connectome data. This video of a workshop walks through these notebooks.

Volumetric data and meshes

Tutorial

The EM and segmentation datasets are too large for conventional downloads. They can be accessed via cloudvolume, a tool that faciliates a numpy-like interface to the data for subvolume reading. Please reach out to the Seung Lab if you need a copy of entire volumetric dataset (e.g. to train machine learning models) or want access to a higher resolution (4, 4, 40 nm) EM dataset.

Triangulated meshes are available for all segments in the datasets (proofread and unproofread) and can be download on a per-segment basis.

Connectome annotations and queries

Tutorial

CAVE is the software infrastructure used to host the FlyWire dataset and the primary access point for programmatic queries. Through CAVE synaptic connections and annotations can be queried.

Navis, natverse(R), and fafbseg also facilitate programmatic access to the connectome data.

Bulk download

Most of the connectome data can be downloaded in bulk from Codex.

Non-programmatic acces

Several tools facilitate non-programmatic access to the same underlying data. The primary portal is Codex. Other portals include braincircuits.io and Catmaid spaces.