Hello all, and thank you for this incredible resource!
We are wondering whether the numerical values associated with the images showing connectivity strength in the mouse brain connectivity repository are available. In other words, for example, following an injection, the brain is registered, and the pixels have been assigned certain values according to the fluorescence strength of the anterograde label. These are all in the CCF. I can visualize the connections, but I’d like to be able to quantify it in the CCF. Are those provided somewhere, or should we download the images ourselves and create them?
Thank you for your help!
This is available via the allensdk python interface, you can find the documentation about access here Mouse Connectivity — Allen SDK dev documentation.