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updated data and figures to new analysis with the right units

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Jan Benda
2025-05-25 23:12:11 +02:00
parent e87d63c46b
commit d043a8c47c
423 changed files with 607 additions and 923 deletions
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22
spectral.py
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@@ -158,7 +158,7 @@ def spectra(stimulus, spikes, dt, nfft):
def susceptibilities(stimulus, spikes, dt=0.0005, nfft=2**9, nmax=0):
""" Stimulus- and response spectra up to second order.
"""Stimulus- and response spectra up to second order.
Compute the complex-valued transfer function (first-order
susceptibility) and the stimulus-response coherence like this:
@@ -176,21 +176,23 @@ def susceptibilities(stimulus, spikes, dt=0.0005, nfft=2**9, nmax=0):
gain = np.abs(prs)/pss
```
The second-order susceptibility has the unit [r]/[ss] and
can be computed like this:
The complex-valued second-order susceptibility has the unit
Hz/[ss] and can be computed like this:
```
chi2 = prss*0.5/(pss.reshape(1, -1)*pss.reshape(-1, 1))
```
The variance of the stimulus is the integral over the power spectrum:
The variance of the stimulus is the integral over the stimulus
power spectral density `pss` (unit [s]^2/Hz):
```
deltaf = freqs[1] - freqs[0] # same as 1/(dt*nfft)
vars = np.sum(pss)*deltaf
```
Likewise for the response.
The response spectral density prr approaches the firing rate for large frequencies.
The response spectral density `prr` (in Hz^2/Hz = Hz) approaches
the firing rate for large frequencies.
Parameters
----------
@@ -212,13 +214,17 @@ def susceptibilities(stimulus, spikes, dt=0.0005, nfft=2**9, nmax=0):
pss: ndarray of float
Power spectral density of the stimulus in unit [s]^2/Hz.
prr: ndarray of float
Power spectral density of the response averaged over segments in unit Hz^2/Hz = Hz.
Power spectral density of the response averaged over segments
in unit Hz^2/Hz = Hz.
prs: ndarray of complex
Cross spectrum between stimulus and response averaged over segments in unit Hz[s]/Hz = [s].
Cross spectrum between stimulus and response averaged over segments
in unit Hz[s]/Hz = [s].
prss: ndarray of complex
Cross bispectrum between stimulus and response averaged over segments.
Cross bispectrum between stimulus and response averaged
over segments in unit [s]^2/Hz.
n: int
Number of FFT segments used.
"""
freqs = np.fft.fftfreq(nfft, dt)
freqs = np.fft.fftshift(freqs)