CNN Neural System Identification Model
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david-klindt Merge pull request #6 from david-klindt/fix_fig3
fix fig3.ipynb to reproduce figure
Latest commit c732511 Feb 7, 2018

CNN Model for System Identification of Neural Types

This is a code repository to the paper (cite as):

Klindt, D., Ecker, A., Euler, T. & Bethge, M. (2017). Neural system identification for large populations separating “what” and “where”. In Advances in Neural Information Processing Systems.




To reproduce the figures from the paper (see above) open the corresponding notebooks:

For Figure 3 and 4 go to


and execute the cells with further instructions provided in the comments.

For Figure 5b-d execute


as well as


where 'Batty' is the CNN model with fixed location mask and 'McInt' the CNN model with fully connected readout.

For Figure 5e execute


For Table 1 see

Folder v1data

The results of the grid search are stored in a database using the data management toolkit DataJoint. If you intend to actually run the code yourself there will be additional work needed setting up a MySQL server and installing DataJoint. We're happy to help with that.

If your goal is to just use the code to fit a model to your own data, consult for a working example.

If you want to check the code we used: defines the neural networks and does the heavy lifting; contains the database classes and exact parameter settings that we used (Fit._make_tuples() is a good starting point).