Different result with roc_auc_score() and auc()

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AUC is not always area under the curve of a ROC curve. Area Under the Curve is an (abstract) area under some curve, so it is a more general thing than AUROC. With imbalanced classes, it may be better to find AUC for a precision-recall curve.

See sklearn source for roc_auc_score:

def roc_auc_score(y_true, y_score, average="macro", sample_weight=None):
    # <...> docstring <...>
    def _binary_roc_auc_score(y_true, y_score, sample_weight=None):
            # <...> bla-bla <...>
    
            fpr, tpr, tresholds = roc_curve(y_true, y_score,
                                            sample_weight=sample_weight)
            return auc(fpr, tpr, reorder=True)
    
    return _average_binary_score(
        _binary_roc_auc_score, y_true, y_score, average,
        sample_weight=sample_weight)

As you can see, this first gets a roc curve, and then calls auc() to get the area.

I guess your problem is the predict_proba() call. For a normal predict() the outputs are always the same:

import numpy as np
from sklearn.linear_model import LogisticRegression
from sklearn.metrics import roc_curve, auc, roc_auc_score

est = LogisticRegression(class_weight="auto")
X = np.random.rand(10, 2)
y = np.random.randint(2, size=10)
est.fit(X, y)

false_positive_rate, true_positive_rate, thresholds = roc_curve(y, est.predict(X))
print auc(false_positive_rate, true_positive_rate)
# 0.857142857143
print roc_auc_score(y, est.predict(X))
# 0.857142857143

If you change the above for this, you’ll sometimes get different outputs:

false_positive_rate, true_positive_rate, thresholds = roc_curve(y, est.predict_proba(X)[:,1])
# may differ
print auc(false_positive_rate, true_positive_rate)
print roc_auc_score(y, est.predict(X))

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