Home

The content of this web page is associated with the publication:

Automated high-throughput characterization of single neurons by means of simplified spiking neuron models

C. Pozzorini*, S. Mensi*, O. Hagens, R. Naud, C. Koch and W. Gerstner

PLOS Computational Biology 2015

Download the Python code from the ./src directory as well as the current-clamp recordings (acquired by O. Hagens) from an L5 Pyr neuron of the mouse somatosensory cortex. The data are stored in the ./data/gif_test have been collected according to the following experimental protocol (further details on the experimental methods can be found in the original manuscript).

The folder ./src contains several .py files. The file Main_TestGIF.py explains how the code can be used to fit a GIF model to the experimental data in_./data/gif_test_. To run the code, open a terminal and type:

python Main_TestGIF.py

During the first execution, some files will be compiled (ignore the warnings).

To write a new script, follow this simple 4-step procedure:

• Step 1: Load experimental data
• Step 2: Perform Active Electrode Compensation (data preprocessing)
• Step 3: Fit a GIF model to the data
• Step 4: Evaluate the GIF model performance

The mathematical details of the computational methods implemented in the code are provided in the original manuscript (Pozzorini et al. 2015).

For questions or remarks, write to: [email protected].