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Python/machine_learning/linear_discriminant_analysis.py
Dhruv Manilawala 3bf86b91e7
fix: no implicit optional (#7984)
2022-11-15 14:55:14 +01:00

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"""
Linear Discriminant Analysis
Assumptions About Data :
1. The input variables has a gaussian distribution.
2. The variance calculated for each input variables by class grouping is the
same.
3. The mix of classes in your training set is representative of the problem.
Learning The Model :
The LDA model requires the estimation of statistics from the training data :
1. Mean of each input value for each class.
2. Probability of an instance belong to each class.
3. Covariance for the input data for each class
Calculate the class means :
mean(x) = 1/n ( for i = 1 to i = n --> sum(xi))
Calculate the class probabilities :
P(y = 0) = count(y = 0) / (count(y = 0) + count(y = 1))
P(y = 1) = count(y = 1) / (count(y = 0) + count(y = 1))
Calculate the variance :
We can calculate the variance for dataset in two steps :
1. Calculate the squared difference for each input variable from the
group mean.
2. Calculate the mean of the squared difference.
------------------------------------------------
Squared_Difference = (x - mean(k)) ** 2
Variance = (1 / (count(x) - count(classes))) *
(for i = 1 to i = n --> sum(Squared_Difference(xi)))
Making Predictions :
discriminant(x) = x * (mean / variance) -
((mean ** 2) / (2 * variance)) + Ln(probability)
---------------------------------------------------------------------------
After calculating the discriminant value for each class, the class with the
largest discriminant value is taken as the prediction.
Author: @EverLookNeverSee
"""
from collections.abc import Callable
from math import log
from os import name, system
from random import gauss, seed
from typing import TypeVar
# Make a training dataset drawn from a gaussian distribution
def gaussian_distribution(mean: float, std_dev: float, instance_count: int) -> list:
"""
Generate gaussian distribution instances based-on given mean and standard deviation
:param mean: mean value of class
:param std_dev: value of standard deviation entered by usr or default value of it
:param instance_count: instance number of class
:return: a list containing generated values based-on given mean, std_dev and
instance_count
>>> gaussian_distribution(5.0, 1.0, 20) # doctest: +NORMALIZE_WHITESPACE
[6.288184753155463, 6.4494456086997705, 5.066335808938262, 4.235456349028368,
3.9078267848958586, 5.031334516831717, 3.977896829989127, 3.56317055489747,
5.199311976483754, 5.133374604658605, 5.546468300338232, 4.086029056264687,
5.005005283626573, 4.935258239627312, 3.494170998739258, 5.537997178661033,
5.320711100998849, 7.3891120432406865, 5.202969177309964, 4.855297691835079]
"""
seed(1)
return [gauss(mean, std_dev) for _ in range(instance_count)]
# Make corresponding Y flags to detecting classes
def y_generator(class_count: int, instance_count: list) -> list:
"""
Generate y values for corresponding classes
:param class_count: Number of classes(data groupings) in dataset
:param instance_count: number of instances in class
:return: corresponding values for data groupings in dataset
>>> y_generator(1, [10])
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
>>> y_generator(2, [5, 10])
[0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1]
>>> y_generator(4, [10, 5, 15, 20]) # doctest: +NORMALIZE_WHITESPACE
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2,
2, 2, 2, 2, 2, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3]
"""
return [k for k in range(class_count) for _ in range(instance_count[k])]
# Calculate the class means
def calculate_mean(instance_count: int, items: list) -> float:
"""
Calculate given class mean
:param instance_count: Number of instances in class
:param items: items that related to specific class(data grouping)
:return: calculated actual mean of considered class
>>> items = gaussian_distribution(5.0, 1.0, 20)
>>> calculate_mean(len(items), items)
5.011267842911003
"""
# the sum of all items divided by number of instances
return sum(items) / instance_count
# Calculate the class probabilities
def calculate_probabilities(instance_count: int, total_count: int) -> float:
"""
Calculate the probability that a given instance will belong to which class
:param instance_count: number of instances in class
:param total_count: the number of all instances
:return: value of probability for considered class
>>> calculate_probabilities(20, 60)
0.3333333333333333
>>> calculate_probabilities(30, 100)
0.3
"""
# number of instances in specific class divided by number of all instances
return instance_count / total_count
# Calculate the variance
def calculate_variance(items: list, means: list, total_count: int) -> float:
"""
Calculate the variance
:param items: a list containing all items(gaussian distribution of all classes)
:param means: a list containing real mean values of each class
:param total_count: the number of all instances
:return: calculated variance for considered dataset
>>> items = gaussian_distribution(5.0, 1.0, 20)
>>> means = [5.011267842911003]
>>> total_count = 20
>>> calculate_variance([items], means, total_count)
0.9618530973487491
"""
squared_diff = [] # An empty list to store all squared differences
# iterate over number of elements in items
for i in range(len(items)):
# for loop iterates over number of elements in inner layer of items
for j in range(len(items[i])):
# appending squared differences to 'squared_diff' list
squared_diff.append((items[i][j] - means[i]) ** 2)
# one divided by (the number of all instances - number of classes) multiplied by
# sum of all squared differences
n_classes = len(means) # Number of classes in dataset
return 1 / (total_count - n_classes) * sum(squared_diff)
# Making predictions
def predict_y_values(
x_items: list, means: list, variance: float, probabilities: list
) -> list:
"""This function predicts new indexes(groups for our data)
:param x_items: a list containing all items(gaussian distribution of all classes)
:param means: a list containing real mean values of each class
:param variance: calculated value of variance by calculate_variance function
:param probabilities: a list containing all probabilities of classes
:return: a list containing predicted Y values
>>> x_items = [[6.288184753155463, 6.4494456086997705, 5.066335808938262,
... 4.235456349028368, 3.9078267848958586, 5.031334516831717,
... 3.977896829989127, 3.56317055489747, 5.199311976483754,
... 5.133374604658605, 5.546468300338232, 4.086029056264687,
... 5.005005283626573, 4.935258239627312, 3.494170998739258,
... 5.537997178661033, 5.320711100998849, 7.3891120432406865,
... 5.202969177309964, 4.855297691835079], [11.288184753155463,
... 11.44944560869977, 10.066335808938263, 9.235456349028368,
... 8.907826784895859, 10.031334516831716, 8.977896829989128,
... 8.56317055489747, 10.199311976483754, 10.133374604658606,
... 10.546468300338232, 9.086029056264687, 10.005005283626572,
... 9.935258239627313, 8.494170998739259, 10.537997178661033,
... 10.320711100998848, 12.389112043240686, 10.202969177309964,
... 9.85529769183508], [16.288184753155463, 16.449445608699772,
... 15.066335808938263, 14.235456349028368, 13.907826784895859,
... 15.031334516831716, 13.977896829989128, 13.56317055489747,
... 15.199311976483754, 15.133374604658606, 15.546468300338232,
... 14.086029056264687, 15.005005283626572, 14.935258239627313,
... 13.494170998739259, 15.537997178661033, 15.320711100998848,
... 17.389112043240686, 15.202969177309964, 14.85529769183508]]
>>> means = [5.011267842911003, 10.011267842911003, 15.011267842911002]
>>> variance = 0.9618530973487494
>>> probabilities = [0.3333333333333333, 0.3333333333333333, 0.3333333333333333]
>>> predict_y_values(x_items, means, variance,
... probabilities) # doctest: +NORMALIZE_WHITESPACE
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2,
2, 2, 2, 2, 2, 2, 2, 2, 2]
"""
# An empty list to store generated discriminant values of all items in dataset for
# each class
results = []
# for loop iterates over number of elements in list
for i in range(len(x_items)):
# for loop iterates over number of inner items of each element
for j in range(len(x_items[i])):
temp = [] # to store all discriminant values of each item as a list
# for loop iterates over number of classes we have in our dataset
for k in range(len(x_items)):
# appending values of discriminants for each class to 'temp' list
temp.append(
x_items[i][j] * (means[k] / variance)
- (means[k] ** 2 / (2 * variance))
+ log(probabilities[k])
)
# appending discriminant values of each item to 'results' list
results.append(temp)
return [result.index(max(result)) for result in results]
# Calculating Accuracy
def accuracy(actual_y: list, predicted_y: list) -> float:
"""
Calculate the value of accuracy based-on predictions
:param actual_y:a list containing initial Y values generated by 'y_generator'
function
:param predicted_y: a list containing predicted Y values generated by
'predict_y_values' function
:return: percentage of accuracy
>>> actual_y = [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1,
... 1, 1 ,1 ,1 ,1 ,1 ,1]
>>> predicted_y = [0, 0, 0, 1, 1, 1, 0, 0, 1, 1, 0, 0,
... 0, 0, 1, 1, 1, 0, 1, 1, 1]
>>> accuracy(actual_y, predicted_y)
50.0
>>> actual_y = [0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1,
... 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2]
>>> predicted_y = [0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1,
... 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2]
>>> accuracy(actual_y, predicted_y)
100.0
"""
# iterate over one element of each list at a time (zip mode)
# prediction is correct if actual Y value equals to predicted Y value
correct = sum(1 for i, j in zip(actual_y, predicted_y) if i == j)
# percentage of accuracy equals to number of correct predictions divided by number
# of all data and multiplied by 100
return (correct / len(actual_y)) * 100
num = TypeVar("num")
def valid_input(
input_type: Callable[[object], num], # Usually float or int
input_msg: str,
err_msg: str,
condition: Callable[[num], bool] = lambda x: True,
default: str | None = None,
) -> num:
"""
Ask for user value and validate that it fulfill a condition.
:input_type: user input expected type of value
:input_msg: message to show user in the screen
:err_msg: message to show in the screen in case of error
:condition: function that represents the condition that user input is valid.
:default: Default value in case the user does not type anything
:return: user's input
"""
while True:
try:
user_input = input_type(input(input_msg).strip() or default)
if condition(user_input):
return user_input
else:
print(f"{user_input}: {err_msg}")
continue
except ValueError:
print(
f"{user_input}: Incorrect input type, expected {input_type.__name__!r}"
)
# Main Function
def main():
"""This function starts execution phase"""
while True:
print(" Linear Discriminant Analysis ".center(50, "*"))
print("*" * 50, "\n")
print("First of all we should specify the number of classes that")
print("we want to generate as training dataset")
# Trying to get number of classes
n_classes = valid_input(
input_type=int,
condition=lambda x: x > 0,
input_msg="Enter the number of classes (Data Groupings): ",
err_msg="Number of classes should be positive!",
)
print("-" * 100)
# Trying to get the value of standard deviation
std_dev = valid_input(
input_type=float,
condition=lambda x: x >= 0,
input_msg=(
"Enter the value of standard deviation"
"(Default value is 1.0 for all classes): "
),
err_msg="Standard deviation should not be negative!",
default="1.0",
)
print("-" * 100)
# Trying to get number of instances in classes and theirs means to generate
# dataset
counts = [] # An empty list to store instance counts of classes in dataset
for i in range(n_classes):
user_count = valid_input(
input_type=int,
condition=lambda x: x > 0,
input_msg=(f"Enter The number of instances for class_{i+1}: "),
err_msg="Number of instances should be positive!",
)
counts.append(user_count)
print("-" * 100)
# An empty list to store values of user-entered means of classes
user_means = []
for a in range(n_classes):
user_mean = valid_input(
input_type=float,
input_msg=(f"Enter the value of mean for class_{a+1}: "),
err_msg="This is an invalid value.",
)
user_means.append(user_mean)
print("-" * 100)
print("Standard deviation: ", std_dev)
# print out the number of instances in classes in separated line
for i, count in enumerate(counts, 1):
print(f"Number of instances in class_{i} is: {count}")
print("-" * 100)
# print out mean values of classes separated line
for i, user_mean in enumerate(user_means, 1):
print(f"Mean of class_{i} is: {user_mean}")
print("-" * 100)
# Generating training dataset drawn from gaussian distribution
x = [
gaussian_distribution(user_means[j], std_dev, counts[j])
for j in range(n_classes)
]
print("Generated Normal Distribution: \n", x)
print("-" * 100)
# Generating Ys to detecting corresponding classes
y = y_generator(n_classes, counts)
print("Generated Corresponding Ys: \n", y)
print("-" * 100)
# Calculating the value of actual mean for each class
actual_means = [calculate_mean(counts[k], x[k]) for k in range(n_classes)]
# for loop iterates over number of elements in 'actual_means' list and print
# out them in separated line
for i, actual_mean in enumerate(actual_means, 1):
print(f"Actual(Real) mean of class_{i} is: {actual_mean}")
print("-" * 100)
# Calculating the value of probabilities for each class
probabilities = [
calculate_probabilities(counts[i], sum(counts)) for i in range(n_classes)
]
# for loop iterates over number of elements in 'probabilities' list and print
# out them in separated line
for i, probability in enumerate(probabilities, 1):
print(f"Probability of class_{i} is: {probability}")
print("-" * 100)
# Calculating the values of variance for each class
variance = calculate_variance(x, actual_means, sum(counts))
print("Variance: ", variance)
print("-" * 100)
# Predicting Y values
# storing predicted Y values in 'pre_indexes' variable
pre_indexes = predict_y_values(x, actual_means, variance, probabilities)
print("-" * 100)
# Calculating Accuracy of the model
print(f"Accuracy: {accuracy(y, pre_indexes)}")
print("-" * 100)
print(" DONE ".center(100, "+"))
if input("Press any key to restart or 'q' for quit: ").strip().lower() == "q":
print("\n" + "GoodBye!".center(100, "-") + "\n")
break
system("cls" if name == "nt" else "clear")
if __name__ == "__main__":
main()
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