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acore/exploratory_analysis.py

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@@ -35,7 +35,7 @@ def get_coefficient_variation(data, drop_columns, group, columns=["name", "y"]):
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:param list columns: names to use for the variable column(s), and for the value column(s)
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:return: Pandas dataframe with columns 'name' (protein identifier), 'x' (coefficient of variation), 'y' (mean) and 'group'.
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Exmaple::
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Example::
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result = get_coefficient_variation(data, drop_columns=['sample', 'subject'], group='group')
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"""

acore/multiple_testing.py

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@@ -9,10 +9,14 @@
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# multitest.multitest_methods_names
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def apply_pvalue_correction(pvalues, alpha: float = 0.05, method: str = "bonferroni"):
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def apply_pvalue_correction(
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pvalues: np.ndarray, alpha: float = 0.05, method: str = "bonferroni"
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) -> tuple[np.ndarray, np.ndarray]:
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"""
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Performs p-value correction using the specified method as in
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statsmodels.stats.multitest.multipletests.
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statsmodels.stats.multitest.multipletests_.
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.. _statsmodels.stats.multitest.multipletests: https://www.statsmodels.org/dev/generated/statsmodels.stats.multitest.multipletests.html
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For more information visit
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https://www.statsmodels.org/dev/generated/statsmodels.stats.multitest.multipletests.html.

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