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Update train_model.py #2

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12 changes: 10 additions & 2 deletions predict_protein/train_model.py
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Original file line number Diff line number Diff line change
Expand Up @@ -133,8 +133,16 @@ def get_train_test(self,
:return: x_train, x_test, y_train, y_test
"""

y_df = self.df[[protein_to_do + '_proteomics']]
y_df = y_df.dropna(subset=[protein_to_do + '_proteomics'])
#y_df = self.df[[protein_to_do + '_proteomics']]
#AB 03.15

#y_df = y_df.dropna(subset=[protein_to_do + '_proteomics'])
#AB: use a REGEX
regex_pattern = protein_to_do + '_proteomics$'
y_df = self.df.filter(regex=regex_pattern)
# After filtering, the column names in y_df will be exactly those that matched the regex,
# so you can safely call dropna() on the entire DataFrame without specifying a subset.
y_df = y_df.dropna()

# skip proteins with fewer than 20 samples
# 2021-11-12 this should be filtered at the protein step (y_df) rather than the
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