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Pairwise distance metric keyword for stats.isc #442

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merged 3 commits into from
Aug 1, 2024
Merged

Pairwise distance metric keyword for stats.isc #442

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329f649
added similarity metric keyword to stats.isc (defaults to correlation)
srken32 Jul 24, 2024
77f7bea
add description for sim_metric
srken32 Jul 24, 2024
e27d301
Update stats.py
srken32 Jul 25, 2024
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4 changes: 3 additions & 1 deletion nltools/stats.py
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Original file line number Diff line number Diff line change
Expand Up @@ -1943,6 +1943,7 @@ def isc(
tail=2,
n_jobs=-1,
random_state=None,
sim_metric="correlation",
):
"""Compute pairwise intersubject correlation from observations by subjects array.

Expand Down Expand Up @@ -1981,6 +1982,7 @@ def isc(
tail: (int) either 1 for one-tail or 2 for two-tailed test (default: 2)
n_jobs: (int) The number of CPUs to use to do the computation. -1 means all CPUs.
return_null: (bool) Return the permutation distribution along with the p-value; default False
sim_metric: (str) pairwise distance metric. See sklearn's pairwise_distances for valid inputs (default: correlation)

Returns:
stats: (dict) dictionary of permutation results ['correlation','p']
Expand All @@ -2000,7 +2002,7 @@ def isc(
stats = {"isc": _compute_isc(data, metric=metric)}

similarity = Adjacency(
1 - pairwise_distances(data.T, metric="correlation"), matrix_type="similarity"
1 - pairwise_distances(data.T, metric=sim_metric), matrix_type="similarity"
)

if method == "bootstrap":
Expand Down
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