Events and Spiking

Note

Inferring spikes from calcium activity is a complex problem. Whether your “spikes” represent a single discrete spike–or a multi-spike event–depends on your choice of inference algorithm, the indicator, sampling rate, imaging quality, and innumerable other factors. It follows that the term event and spike are used interchangeably in CalSciPy.

Generating Rasters

To generate a raster, utilize the generate_raster function.

Firing Rates

CalSciPy provides several small functions that abstract firing rate calculations and improve the readability of your scripts.

calc_firing_rates: Calculate instantaneous firing rates from spike (event) probabilities.
calc_mean_firing_rates: Calculate mean firing rates from instantaneous firing rates.
normalize_firing_rates: Normalize firing rates by scaling to a max of 1.0.