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Fix gfp computation #197

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Fix gfp computation #197

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vferat
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@vferat vferat commented Sep 10, 2024

As discussed in #160 and #195, introduces changes to the Global Field Power (GFP) computation based on the selected channel type.

When the channel type is eeg, the GFP is now computed using the standard deviation (std).
When the channel type is grador mag, the GFP is computed using the root mean square (rms).

pycrostates/preprocessing/extract_gfp_peaks.py Outdated Show resolved Hide resolved
Comment on lines 34 to 45
def _std():
def compute_std(data):
return np.std(data, axis=0)

return compute_std


def _rms():
def compute_rms(data):
return np.sqrt(np.mean(data**2, axis=0))

return compute_rms
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@mscheltienne mscheltienne Sep 10, 2024

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No need to nest here and you could use a dict to store the GFP functions per channel type:

_GFP_FUNC: dict[str, Callable] = {
    "eeg": lambda x: np.std(x, axis=0),
    "grad": lambda x: np.sqrt(np.mean(x**2, axis=0)),
    "mag": lambda x: np.sqrt(np.mean(x**2, axis=0)),
}

# and later to use it:
_check_value(ch_type, _GFP_FUNC, "ch_type")
gfp = _GFP_FUNC[ch_type](data)

It removes the additional private functions and the nesting of function within, and removes the if/else logic on channel types.

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2 participants