mlquantify 0.1.7__py3-none-any.whl → 0.1.9__py3-none-any.whl

mlquantify/utils/method.py

@@ -1,449 +0,0 @@
-import pandas as pd
-import numpy as np
-from sklearn.model_selection import StratifiedKFold
-
-
-
-def sqEuclidean(dist1, dist2):
-    """
-    Compute the squared Euclidean distance between two probability distributions.
-
-    The squared Euclidean distance is a measure of dissimilarity between two probability
-    distributions. It is defined as:
-
-        D(P, Q) = Σ(Pᵢ - Qᵢ)²
-
-    Parameters
-    ----------
-    dist1 : array-like
-        The first probability distribution \( P \), where each element \( Pᵢ \) represents
-        the probability of the \( i \)-th event.
-    dist2 : array-like
-        The second probability distribution \( Q \), where each element \( Qᵢ \) represents
-        the probability of the \( i \)-th event.
-
-    Returns
-    -------
-    float
-        The squared Euclidean distance between the two distributions.
-
-    Notes
-    -----
-    - This distance is non-negative and equals zero if and only if the two distributions
-      are identical.
-    - Both input distributions must be valid probability distributions; their elements
-      should be non-negative and sum to 1.
-    """
-    P = dist1
-    Q = dist2
-    return sum((P - Q)**2)
-
-    
-def probsymm(dist1, dist2):
-    """
-    Compute the probabilistic symmetric distance between two probability distributions.
-
-    The probabilistic symmetric distance is a measure of dissimilarity between two probability
-    distributions. It is defined as:
-
-        D(P, Q) = 2 * Σ((Pᵢ - Qᵢ)² / (Pᵢ + Qᵢ))
-
-    Parameters
-    ----------
-    dist1 : array-like
-        The first probability distribution \( P \), where each element \( Pᵢ \) represents
-        the probability of the \( i \)-th event.
-    dist2 : array-like
-        The second probability distribution \( Q \), where each element \( Qᵢ \) represents
-        the probability of the \( i \)-th event.
-
-    Returns
-    -------
-    float
-        The probabilistic symmetric distance between the two distributions.
-
-    Notes
-    -----
-    - This distance is non-negative and equals zero if and only if the two distributions
-      are identical.
-    - Both input distributions must be valid probability distributions; their elements
-      should be non-negative and sum to 1.
-    - Division by zero is avoided by assuming the input distributions have no zero elements.
-    """
-    P = dist1
-    Q = dist2
-    return 2 * sum((P - Q)**2 / (P + Q))
-
-
-def topsoe(dist1, dist2):
-    """
-    Compute the Topsøe distance between two probability distributions.
-
-    The Topsøe distance is a measure of divergence between two probability distributions.
-    It is defined as:
-
-        D(P, Q) = Σ(Pᵢ * log(2 * Pᵢ / (Pᵢ + Qᵢ)) + Qᵢ * log(2 * Qᵢ / (Pᵢ + Qᵢ)))
-
-    Parameters
-    ----------
-    dist1 : array-like
-        The first probability distribution \( P \), where each element \( Pᵢ \) represents
-        the probability of the \( i \)-th event.
-    dist2 : array-like
-        The second probability distribution \( Q \), where each element \( Qᵢ \) represents
-        the probability of the \( i \)-th event.
-
-    Returns
-    -------
-    float
-        The Topsøe distance between the two distributions.
-
-    Notes
-    -----
-    - This distance is non-negative and equals zero if and only if the two distributions
-      are identical.
-    - Both input distributions must be valid probability distributions; their elements
-      should be non-negative and sum to 1.
-    - Division by zero is avoided by assuming the input distributions have no zero elements.
-    - The logarithm used is the natural logarithm.
-    """
-    P = dist1
-    Q = dist2
-    return sum(P * np.log(2 * P / (P + Q)) + Q * np.log(2 * Q / (P + Q)))
-
-
-def hellinger(dist1, dist2):
-    """
-    Compute the Hellinger distance between two probability distributions.
-
-    The Hellinger distance is a measure of similarity between two probability distributions.
-    It is defined as:
-
-        H(P, Q) = 2 * sqrt(|1 - Σ√(Pᵢ * Qᵢ)|)
-
-    Parameters
-    ----------
-    dist1 : array-like
-        The first probability distribution \( P \), where each element \( Pᵢ \) represents
-        the probability of the \( i \)-th event.
-    dist2 : array-like
-        The second probability distribution \( Q \), where each element \( Qᵢ \) represents
-        the probability of the \( i \)-th event.
-
-    Returns
-    -------
-    float
-        The Hellinger distance between the two distributions.
-
-    Notes
-    -----
-    - The Hellinger distance ranges from 0 to 2, where 0 indicates that the distributions
-      are identical, and 2 indicates that they are completely different.
-    - Both input distributions must be valid probability distributions; their elements
-      should be non-negative and sum to 1.
-    - The absolute value is used to handle numerical errors that may cause the expression
-      inside the square root to become slightly negative.
-    """
-    P=dist1
-    Q=dist2
-    return 2 * np.sqrt(np.abs(1 - sum(np.sqrt(P * Q))))
-
-
-
-
-
-
-
-
-
-
-
-
-
-def get_scores(X, y, learner, folds: int = 10, learner_fitted: bool = False) -> tuple:
-    """
-    Generate true labels and predicted probabilities using a machine learning model.
-
-    This function evaluates a machine learning model using cross-validation or directly 
-    with a pre-fitted model, returning the true labels and predicted probabilities.
-
-    Parameters
-    ----------
-    X : Union[np.ndarray, pd.DataFrame]
-        Input features for the model.
-    y : Union[np.ndarray, pd.Series]
-        Target labels corresponding to the input features.
-    learner : object
-        A machine learning model that implements the `fit` and `predict_proba` methods.
-    folds : int, optional
-        Number of folds for stratified cross-validation. Defaults to 10.
-    learner_fitted : bool, optional
-        If `True`, assumes the learner is already fitted and directly predicts probabilities 
-        without performing cross-validation. Defaults to `False`.
-
-    Returns
-    -------
-    tuple
-        - An array of true labels.
-        - An array of predicted probabilities.
-
-    Notes
-    -----
-    - When `learner_fitted` is `True`, the model is assumed to be pre-trained and no 
-      cross-validation is performed.
-    - When `learner_fitted` is `False`, stratified k-fold cross-validation is used to 
-      generate predictions.
-    - The input data `X` and `y` are converted to pandas objects for compatibility.
-    """
-    if isinstance(X, np.ndarray):
-        X = pd.DataFrame(X)
-    if isinstance(y, np.ndarray):
-        y = pd.Series(y)
-
-    if learner_fitted:
-        probabilities = learner.predict_proba(X)
-        y_label = y
-    else:
-        skf = StratifiedKFold(n_splits=folds)
-        probabilities = []
-        y_label = []
-
-        for train_index, valid_index in skf.split(X, y):
-            tr_data = pd.DataFrame(X.iloc[train_index])  # Train data and labels
-            tr_label = y.iloc[train_index]
-            valid_data = pd.DataFrame(X.iloc[valid_index])  # Validation data and labels
-            valid_label = y.iloc[valid_index]
-
-            learner.fit(tr_data, tr_label)
-            probabilities.extend(learner.predict_proba(valid_data))  # Evaluating scores
-            y_label.extend(valid_label)
-
-    return np.asarray(y_label), np.asarray(probabilities)
-
-
-
-
-
-
-def getHist(scores, nbins):
-    """
-    Calculate histogram-like bin probabilities for a given set of scores.
-
-    This function divides the score range into equal bins and computes the proportion 
-    of scores in each bin, normalized by the total count.
-
-    Parameters
-    ----------
-    scores : np.ndarray
-        A 1-dimensional array of scores.
-    nbins : int
-        Number of bins for dividing the score range.
-
-    Returns
-    -------
-    np.ndarray
-        An array containing the normalized bin probabilities.
-
-    Notes
-    -----
-    - The bins are equally spaced between 0 and 1, with an additional upper boundary 
-      to include the maximum score.
-    - The returned probabilities are normalized to account for the total number of scores.
-    """
-    breaks = np.linspace(0, 1, int(nbins) + 1)
-    breaks = np.delete(breaks, -1)
-    breaks = np.append(breaks, 1.1)
-
-    re = np.repeat(1 / (len(breaks) - 1), (len(breaks) - 1))
-    for i in range(1, len(breaks)):
-        re[i - 1] = (re[i - 1] + len(np.where((scores >= breaks[i - 1]) & (scores < breaks[i]))[0])) / (len(scores) + 1)
-
-    return re
-
-
-
-
-
-
-
-def MoSS(n:int, alpha:float, m:float):
-    """
-    Generate a synthetic dataset using the MoSS method.
-
-    Parameters
-    ----------
-    n : int
-        The number of samples to generate.
-    alpha : float
-        The proportion of positive samples in the dataset.
-    m : float
-        The shape parameter for the synthetic dataset.
-
-    Returns
-    -------
-    tuple
-        A tuple containing the synthetic positive and negative samples.
-    """
-    n_pos = int(n*alpha)
-    n_neg = int((1-alpha)*n)
-
-    x_pos = np.arange(1, n_pos, 1)
-    x_neg = np.arange(1, n_neg, 1)
-    
-    syn_plus = np.power(x_pos/(n_pos+1), m)
-    syn_neg = 1 - np.power(x_neg/(n_neg+1), m)
-
-    #moss = np.union1d(syn_plus, syn_neg)
-
-    return syn_plus, syn_neg
-
-
-
-
-
-def ternary_search(left, right, f, eps=1e-4):
-    """This function applies Ternary search
-    
-    Parameters
-    ----------
-    left : float
-        The left boundary of the search interval.
-    right : float
-        The right boundary of the search interval.
-    f : function
-        The function to optimize.
-    eps : float, optional
-        The desired precision of the result. Defaults to 1e-4.
-    
-    Returns
-    -------
-    float
-        The value of the argument that minimizes the function.
-    """
-
-    while True:
-        if abs(left - right) < eps:
-            return(left + right) / 2
-    
-        leftThird  = left + (right - left) / 3
-        rightThird = right - (right - left) / 3
-    
-        if f(leftThird) > f(rightThird):
-            left = leftThird
-        else:
-            right = rightThird 
-            
-            
-            
-        
-
-
-
-
-
-
-
-
-def compute_table(y, y_pred, classes):
-    """
-    Compute the confusion matrix table for a binary classification task.
-    
-    Parameters
-    ----------
-    y : np.ndarray
-        The true labels.
-    y_pred : np.ndarray
-        The predicted labels.
-    classes : np.ndarray
-        The unique classes in the dataset.
-    
-    Returns
-    -------
-    tuple
-        A tuple containing the True Positives, False Positives, False Negatives, and True Negatives.
-    """
-    TP = np.logical_and(y == y_pred, y == classes[1]).sum()
-    FP = np.logical_and(y != y_pred, y == classes[0]).sum()
-    FN = np.logical_and(y != y_pred, y == classes[1]).sum()
-    TN = np.logical_and(y == y_pred, y == classes[0]).sum()
-    return TP, FP, FN, TN
-
-
-def compute_tpr(TP, FN):
-    """
-    Compute the True Positive Rate (Recall) for a binary classification task.
-    
-    Parameters
-    ----------
-    TP : int
-        The number of True Positives.
-    FN : int
-        The number of False Negatives.
-    
-    Returns
-    -------
-    float
-        The True Positive Rate (Recall).
-    """
-    if TP + FN == 0:
-        return 0
-    return TP / (TP + FN)
-
-
-def compute_fpr(FP, TN):
-    """
-    Compute the False Positive Rate for a binary classification task.
-    
-    Parameters
-    ----------
-    FP : int
-        The number of False Positives.
-    TN : int
-        The number of True Negatives.
-    
-    Returns
-    -------
-    float
-        The False Positive Rate.
-    """
-    if FP + TN == 0:
-        return 0
-    return FP / (FP + TN)
-
-
-def adjust_threshold(y, probabilities:np.ndarray, classes:np.ndarray) -> tuple:
-    """
-    Adjust the threshold for a binary quantification task to maximize the True Positive Rate.
-    
-    Parameters
-    ----------
-    y : np.ndarray
-        The true labels.
-    probabilities : np.ndarray
-        The predicted probabilities.
-    classes : np.ndarray
-        The unique classes in the dataset.
-    
-    Returns
-    -------
-    tuple
-        The best True Positive Rate and False Positive Rate.
-    """
-    unique_scores = np.linspace(0, 1, 101)
-    
-    tprs = []
-    fprs = []
-    
-    for threshold in unique_scores:
-        y_pred = np.where(probabilities >= threshold, classes[1], classes[0])
-        
-        TP, FP, FN, TN = compute_table(y, y_pred, classes)
-        
-        tpr = compute_tpr(TP, FN)
-        fpr = compute_fpr(FP, TN)
-        
-        tprs.append(tpr)
-        fprs.append(fpr)
-    
-    #best_tpr, best_fpr = self.adjust_threshold(np.asarray(tprs), np.asarray(fprs))
-    return (unique_scores, np.asarray(tprs), np.asarray(fprs))

mlquantify-0.1.7.dist-info/RECORD

@@ -1,22 +0,0 @@
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-mlquantify/model_selection.py,sha256=rPR4fwwxuihzx5Axq4NhMOeuMBzpoC9pKp5taYNt_LY,12678
-mlquantify/plots.py,sha256=9XOhx4QXkN9RkkiErLuL90FWIBUV2YTEJNT4Jwfy0ac,12380
-mlquantify/classification/__init__.py,sha256=3FGf-F4SOM3gByUPsWdnBzjyC_31B3MtzuolEuocPls,22
-mlquantify/classification/methods.py,sha256=yDSbpoqM3hfF0a9ATzKqfG9S-44x-0Rq0lkAVJKTIEs,5006
-mlquantify/evaluation/__init__.py,sha256=x1grng0n_QeZpVBU8-pwagYdBMkbMRILtrp1qk_bLvk,447
-mlquantify/evaluation/measures.py,sha256=fIKyxxlD8em3oaj4u_BeXmNyUQG_A0vXWY8APPgNoJ0,6579
-mlquantify/evaluation/protocol.py,sha256=uVWHlnC_A_EX0Eki800Lkau9ZsyNundXoYtp7797ipI,10195
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-mlquantify/methods/meta.py,sha256=mBunCc_PFLdmrs5sf5MDc8TbO3VFpLAmxV2y2VDNjY8,19052
-mlquantify/methods/mixture_models.py,sha256=si2Pzaka5Kbva4QKBzLolvb_8V0ZEjp68UBAiOwl49s,35166
-mlquantify/methods/non_aggregative.py,sha256=xaBu21TUtiYkOEUKO16NaNMwdNa6-SNjfBsc5PpIMyI,4815
-mlquantify/methods/threshold_optimization.py,sha256=NYGKbYvtfmiBeU8wpTiFCdURkijcPRZtybPOt6vtXbY,30489
-mlquantify/utils/__init__.py,sha256=logWrL6B6mukP8tvYm_UPEdO9eNA-J-ySILr7-syDoc,44
-mlquantify/utils/general.py,sha256=wKJSmwF1KfSlSrDm0KTf92FMvB62BBOxf2Se9HyeWYE,8668
-mlquantify/utils/method.py,sha256=RL4vBJGl5_6DZ59Bs62hdNXI_hnoDIWilMMyMPiOjBg,12631
-mlquantify-0.1.7.dist-info/METADATA,sha256=pypNPQ7SLiHSzhZaoDB-Cy2K0XESL8DNIvn74eZ3slw,5166
-mlquantify-0.1.7.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
-mlquantify-0.1.7.dist-info/top_level.txt,sha256=tGEkYkbbFElwULvqENjam3u1uXtyC1J9dRmibsq8_n0,11
-mlquantify-0.1.7.dist-info/RECORD,,