i-Zaak/AllenMouseConnectome

A tutorial for importing tracer data from the Allen Institute database and build Structural Connectivity matrices with personalized ROIs

AllenMouseConnectome

A tutorial for importing tracer data from the Allen Institute database and build Structural Connectivity matrices with personalized ROIs

Based on https://www.eneuro.org/content/4/3/ENEURO.0111-17.2017.long

and https://www.nature.com/articles/nature13186

Install allensdk before use

https://allensdk.readthedocs.io/en/latest/install.html

Valuable Resources for importing and visualizing the Allen Mouse Atlas

https://allensdk.readthedocs.io/en/latest/_static/examples/nb/mouse_connectivity.html

https://scalablebrainatlas.incf.org/mouse/ABA_v3

https://atlas.brain-map.org/atlas