Part of the accompanying code repository to the "Hierarchical temporal prediction captures motion processing along the visual pathway" paper. This repo contains the code to perform the neural V1 fits.

Installation

conda env create -f envs/environment.yml
conda env create -f envs/prednet.yml

Clone control model repos

Clone repos into the project's dependencies folder.

git clone https://github.com/coxlab/prednet.git
git clone https://github.com/sacadena/Cadena2019PlosCB.git
git clone  https://github.com/ben-willmore/bwt.git
git clone  https://github.com/webstorms/StackTP.git

Download V1 data

Image V1 dataset obtainable from Cadena et al. 2019: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006897 Movie V1 dataset obtainable from Nahaus and Ringach, 2007: https://crcns.org/data-sets/vc/pvc-1

Movie dataset needs to be further processed using scripts/build_dataset.py and both tensorized responses are built using scripts/neuron_to_tensor.py.

Building PC model activity dataset

conda activate neuralpred

All build scripts can be found under scripts/build_pca. You will need to activate prednetbuild for building the prednet responses.

Training

All readout fitting scripts can be found under scripts/fit_models.

Inspecting models

See notebooks/Inspection.ipynb to view results.

License

Code released under the MIT license.