Classification.py

# numpy and pandas for data manipulation
import numpy as np
import pandas as pd 

# sklearn preprocessing for dealing with categorical variables
from sklearn.preprocessing import LabelEncoder

# File system manangement
import os
from sklearn.preprocessing import PolynomialFeatures

# Suppress warnings 
import warnings
warnings.filterwarnings('ignore')

# matplotlib and seaborn for plotting
import matplotlib.pyplot as plt
import seaborn as sns
# Training data
app_train = pd.read_csv('application_train.csv')
print('Training data shape: ', app_train.shape)
app_train.head()
# Testing data features
app_test = pd.read_csv('application_test.csv')
print('Testing data shape: ', app_test.shape)
app_test.head()
app_train['TARGET'].value_counts()
app_train['TARGET'].astype(int).plot.hist();
# Function to calculate missing values by column# Funct 
def missing_values_table(df):
        # Total missing values
        mis_val = df.isnull().sum()
        
        # Percentage of missing values
        mis_val_percent = 100 * df.isnull().sum() / len(df)
        
        # Make a table with the results
        mis_val_table = pd.concat([mis_val, mis_val_percent], axis=1)
        
        # Rename the columns
        mis_val_table_ren_columns = mis_val_table.rename(
        columns = {0 : 'Missing Values', 1 : '% of Total Values'})
        
        # Sort the table by percentage of missing descending
        mis_val_table_ren_columns = mis_val_table_ren_columns[
            mis_val_table_ren_columns.iloc[:,1] != 0].sort_values(
        '% of Total Values', ascending=False).round(1)
        
        # Print some summary information
        print ("Your selected dataframe has " + str(df.shape[1]) + " columns.\n"      
            "There are " + str(mis_val_table_ren_columns.shape[0]) +
              " columns that have missing values.")
        
        # Return the dataframe with missing information
        return mis_val_table_ren_columns
        
# Missing values statistics
missing_values = missing_values_table(app_train)
missing_values.head(20)
# Number of each type of column
app_train.dtypes.value_counts()
# Number of unique classes in each object column
app_train.select_dtypes(['object']).apply(pd.Series.nunique, axis = 0)
# Create a label encoder object
le = LabelEncoder()
le_count = 0

# Iterate through the columns
for col in app_train:
    if app_train[col].dtype == 'object':
        # If 2 or fewer unique categories
        if len(list(app_train[col].unique())) <= 2:
            # Train on the training data
            le.fit(app_train[col])
            # Transform both training and testing data
            app_train[col] = le.transform(app_train[col])
            app_test[col] = le.transform(app_test[col])
            
            # Keep track of how many columns were label encoded
            le_count += 1
            
print('%d columns were label encoded.' % le_count)
# one-hot encoding of categorical variables
app_train = pd.get_dummies(app_train)
app_test = pd.get_dummies(app_test)

print('Training Features shape: ', app_train.shape)
print('Testing Features shape: ', app_test.shape)
train_labels = app_train['TARGET']

# Align the training and testing data, keep only columns present in both dataframes
app_train, app_test = app_train.align(app_test, join = 'inner', axis = 1)

# Add the target back in
app_train['TARGET'] = train_labels

print('Training Features shape: ', app_train.shape)
print('Testing Features shape: ', app_test.shape)
(app_train['DAYS_BIRTH'] / -365).describe()
app_train['DAYS_EMPLOYED'].describe()
app_train['DAYS_EMPLOYED'].plot.hist(title = 'Days Employment Histogram');
plt.xlabel('Days Employment');
anom = app_train[app_train['DAYS_EMPLOYED'] == 365243]
non_anom = app_train[app_train['DAYS_EMPLOYED'] != 365243]
print('The non-anomalies default on %0.2f%% of loans' % (100 * non_anom['TARGET'].mean()))
print('The anomalies default on %0.2f%% of loans' % (100 * anom['TARGET'].mean()))
print('There are %d anomalous days of employment' % len(anom))

# Create an anomalous flag column
app_train['DAYS_EMPLOYED_ANOM'] = app_train["DAYS_EMPLOYED"] == 365243

# Replace the anomalous values with nan
app_train['DAYS_EMPLOYED'].replace({365243: np.nan}, inplace = True)

app_train['DAYS_EMPLOYED'].plot.hist(title = 'Days Employment Histogram');
plt.xlabel('Days Employment');
app_test['DAYS_EMPLOYED_ANOM'] = app_test["DAYS_EMPLOYED"] == 365243
app_test["DAYS_EMPLOYED"].replace({365243: np.nan}, inplace = True)

print('There are %d anomalies in the test data out of %d entries' % (app_test["DAYS_EMPLOYED_ANOM"].sum(), len(app_test)))
# Find correlations with the target and sort
correlations = app_train.corr()['TARGET'].sort_values()

# Display correlations
print('Most Positive Correlations:\n', correlations.tail(15))
print('\nMost Negative Correlations:\n', correlations.head(15))
# Find the correlation of the positive days since birth and target
app_train['DAYS_BIRTH'] = abs(app_train['DAYS_BIRTH'])
app_train['DAYS_BIRTH'].corr(app_train['TARGET'])
# Set the style of plots
plt.style.use('fivethirtyeight')

# Plot the distribution of ages in years
plt.hist(app_train['DAYS_BIRTH'] / 365, edgecolor = 'k', bins = 25)
plt.title('Age of Client'); plt.xlabel('Age (years)'); plt.ylabel('Count');
plt.figure(figsize = (10, 8))

# KDE plot of loans that were repaid on time
sns.kdeplot(app_train.loc[app_train['TARGET'] == 0, 'DAYS_BIRTH'] / 365, label = 'target == 0')

# KDE plot of loans which were not repaid on time
sns.kdeplot(app_train.loc[app_train['TARGET'] == 1, 'DAYS_BIRTH'] / 365, label = 'target == 1')

# Labeling of plot
plt.xlabel('Age (years)'); plt.ylabel('Density'); plt.title('Distribution of Ages');
# Age information into a separate dataframe
age_data = app_train[['TARGET', 'DAYS_BIRTH']]
age_data['YEARS_BIRTH'] = age_data['DAYS_BIRTH'] / 365

# Bin the age data
age_data['YEARS_BINNED'] = pd.cut(age_data['YEARS_BIRTH'], bins = np.linspace(20, 70, num = 11))
age_data.head(10)
# Group by the bin and calculate averages
age_groups  = age_data.groupby('YEARS_BINNED').mean()
age_groups
plt.figure(figsize = (8, 8))

# Graph the age bins and the average of the target as a bar plot
#plt.bar(age_groups.index.astype(str), 100 * age_groups['TARGET'])

# Plot labeling
plt.xticks(rotation = 75); plt.xlabel('Age Group (years)'); plt.ylabel('Failure to Repay (%)')
plt.title('Failure to Repay by Age Group');
# Extract the EXT_SOURCE variables and show correlations
ext_data = app_train[['TARGET', 'EXT_SOURCE_1', 'EXT_SOURCE_2', 'EXT_SOURCE_3', 'DAYS_BIRTH']]
ext_data_corrs = ext_data.corr()
ext_data_corrs
plt.figure(figsize = (8, 6))

# Heatmap of correlations
sns.heatmap(ext_data_corrs, cmap = plt.cm.RdYlBu_r, vmin = -0.25, annot = True, vmax = 0.6)
plt.title('Correlation Heatmap');
plt.figure(figsize = (10, 12))

# iterate through the sources
for i, source in enumerate(['EXT_SOURCE_1', 'EXT_SOURCE_2', 'EXT_SOURCE_3']):
    
    # create a new subplot for each source
    plt.subplot(3, 1, i + 1)
    # plot repaid loans
    sns.kdeplot(app_train.loc[app_train['TARGET'] == 0, source], label = 'target == 0')
    # plot loans that were not repaid
    sns.kdeplot(app_train.loc[app_train['TARGET'] == 1, source], label = 'target == 1')
    
    # Label the plots
    plt.title('Distribution of %s by Target Value' % source)
    plt.xlabel('%s' % source); plt.ylabel('Density');
    
plt.tight_layout(h_pad = 2.5)
# Copy the data for plotting
plot_data = ext_data.drop(['DAYS_BIRTH'],axis=1).copy()

# Add in the age of the client in years
plot_data['YEARS_BIRTH'] = age_data['YEARS_BIRTH']

# Drop na values and limit to first 100000 rows
plot_data = plot_data.dropna().loc[:100000, :]

# Function to calculate correlation coefficient between two columns
def corr_func(x, y, **kwargs):
    r = np.corrcoef(x, y)[0][1]
    ax = plt.gca()
    ax.annotate("r = {:.2f}".format(r),
                xy=(.2, .8), xycoords=ax.transAxes,
                size = 20)

# Create the pairgrid object
grid = sns.PairGrid(data = plot_data, size = 3, diag_sharey=False,
                    hue = 'TARGET', 
                    vars = [x for x in list(plot_data.columns) if x != 'TARGET'])

# Upper is a scatter plot
grid.map_upper(plt.scatter, alpha = 0.2)

# Diagonal is a histogram
grid.map_diag(sns.kdeplot)

# Bottom is density plot
grid.map_lower(sns.kdeplot, cmap = plt.cm.OrRd_r);

plt.suptitle('Ext Source and Age Features Pairs Plot', size = 32, y = 1.05);
# Make a new dataframe for polynomial features
poly_features = app_train[['EXT_SOURCE_1', 'EXT_SOURCE_2', 'EXT_SOURCE_3', 'DAYS_BIRTH', 'TARGET']]
poly_features_test = app_test[['EXT_SOURCE_1', 'EXT_SOURCE_2', 'EXT_SOURCE_3', 'DAYS_BIRTH']]

# imputer for handling missing values
from sklearn.preprocessing import Imputer
imputer = Imputer(strategy = 'median')

poly_target = poly_features['TARGET']

poly_features = poly_features.drop(['TARGET'],axis=1)

# Need to impute missing values
poly_features = imputer.fit_transform(poly_features)
poly_features_test = imputer.transform(poly_features_test)
                                
# Create the polynomial object with specified degree
poly_transformer = PolynomialFeatures(degree = 3)
# Train the polynomial features
poly_transformer.fit(poly_features)

# Transform the features
poly_features = poly_transformer.transform(poly_features)
poly_features_test = poly_transformer.transform(poly_features_test)
print('Polynomial Features shape: ', poly_features.shape)
poly_transformer.get_feature_names(input_features = ['EXT_SOURCE_1', 'EXT_SOURCE_2', 'EXT_SOURCE_3', 'DAYS_BIRTH'])[:15]
# Create a dataframe of the features 
poly_features = pd.DataFrame(poly_features, 
                             columns = poly_transformer.get_feature_names(['EXT_SOURCE_1', 'EXT_SOURCE_2', 
                                                                           'EXT_SOURCE_3', 'DAYS_BIRTH']))

# Add in the target
poly_features['TARGET'] = poly_target

# Find the correlations with the target
poly_corrs = poly_features.corr()['TARGET'].sort_values()

# Display most negative and most positive
print(poly_corrs.head(10))
print(poly_corrs.tail(5))
# Put test features into dataframe
poly_features_test = pd.DataFrame(poly_features_test, 
                                  columns = poly_transformer.get_feature_names(['EXT_SOURCE_1', 'EXT_SOURCE_2', 
                                                                                'EXT_SOURCE_3', 'DAYS_BIRTH']))

# Merge polynomial features into training dataframe
poly_features['SK_ID_CURR'] = app_train['SK_ID_CURR']
app_train_poly = app_train.merge(poly_features, on = 'SK_ID_CURR', how = 'left')

# Merge polnomial features into testing dataframe
poly_features_test['SK_ID_CURR'] = app_test['SK_ID_CURR']
app_test_poly = app_test.merge(poly_features_test, on = 'SK_ID_CURR', how = 'left')

# Align the dataframes
app_train_poly, app_test_poly = app_train_poly.align(app_test_poly, join = 'inner', axis = 1)

# Print out the new shapes
print('Training data with polynomial features shape: ', app_train_poly.shape)
print('Testing data with polynomial features shape:  ', app_test_poly.shape)
app_train_domain = app_train.copy()
app_test_domain = app_test.copy()

app_train_domain['CREDIT_INCOME_PERCENT'] = app_train_domain['AMT_CREDIT'] / app_train_domain['AMT_INCOME_TOTAL']
app_train_domain['ANNUITY_INCOME_PERCENT'] = app_train_domain['AMT_ANNUITY'] / app_train_domain['AMT_INCOME_TOTAL']
app_train_domain['CREDIT_TERM'] = app_train_domain['AMT_ANNUITY'] / app_train_domain['AMT_CREDIT']
app_train_domain['DAYS_EMPLOYED_PERCENT'] = app_train_domain['DAYS_EMPLOYED'] / app_train_domain['DAYS_BIRTH']
app_test_domain['CREDIT_INCOME_PERCENT'] = app_test_domain['AMT_CREDIT'] / app_test_domain['AMT_INCOME_TOTAL']
app_test_domain['ANNUITY_INCOME_PERCENT'] = app_test_domain['AMT_ANNUITY'] / app_test_domain['AMT_INCOME_TOTAL']
app_test_domain['CREDIT_TERM'] = app_test_domain['AMT_ANNUITY'] / app_test_domain['AMT_CREDIT']
app_test_domain['DAYS_EMPLOYED_PERCENT'] = app_test_domain['DAYS_EMPLOYED'] / app_test_domain['DAYS_BIRTH']
plt.figure(figsize = (12, 20))
# iterate through the new features
for i, feature in enumerate(['CREDIT_INCOME_PERCENT', 'ANNUITY_INCOME_PERCENT', 'CREDIT_TERM', 'DAYS_EMPLOYED_PERCENT']):
    
    # create a new subplot for each source
    plt.subplot(4, 1, i + 1)
    # plot repaid loans
    sns.kdeplot(app_train_domain.loc[app_train_domain['TARGET'] == 0, feature], label = 'target == 0')
    # plot loans that were not repaid
    sns.kdeplot(app_train_domain.loc[app_train_domain['TARGET'] == 1, feature], label = 'target == 1')
    
    # Label the plots
    plt.title('Distribution of %s by Target Value' % feature)
    plt.xlabel('%s' % feature); plt.ylabel('Density');
    
plt.tight_layout(h_pad = 2.5)
from sklearn.preprocessing import MinMaxScaler, Imputer

# Drop the target from the training data
if 'TARGET' in app_train:
    train = app_train.drop(columns = ['TARGET'])
else:
    train = app_train.copy()
    
# Feature names
features = list(train.columns)

# Copy of the testing data
test = app_test.copy()

# Median imputation of missing values
imputer = Imputer(strategy = 'median')

# Scale each feature to 0-1
scaler = MinMaxScaler(feature_range = (0, 1))

# Fit on the training data
imputer.fit(train)

# Transform both training and testing data
train = imputer.transform(train)
test = imputer.transform(app_test)

# Repeat with the scaler
scaler.fit(train)
train = scaler.transform(train)
test = scaler.transform(test)

print('Training data shape: ', train.shape)
print('Testing data shape: ', test.shape)
from sklearn.linear_model import LogisticRegression

# Make the model with the specified regularization parameter
log_reg = LogisticRegression(C = 0.0001)

# Train on the training data
log_reg.fit(train, train_labels)
# Make predictions
# Make sure to select the second column only
log_reg_pred = log_reg.predict_proba(test)[:, 1]
# Submission dataframe
submit = app_test[['SK_ID_CURR']]
submit['TARGET'] = log_reg_pred

submit.head()
# Save the submission to a csv file
submit.to_csv('log_reg_baseline4.csv', index = False)
from sklearn.ensemble import RandomForestClassifier

# Make the random forest classifier
random_forest = RandomForestClassifier(n_estimators = 100, random_state = 50, verbose = 1, n_jobs = -1)
# Train on the training data
random_forest.fit(train, train_labels)

# Extract feature importances
feature_importance_values = random_forest.feature_importances_
feature_importances = pd.DataFrame({'feature': features, 'importance': feature_importance_values})

# Make predictions on the test data
predictions = random_forest.predict_proba(test)[:, 1]
# Make a submission dataframe
submit = app_test[['SK_ID_CURR']]
submit['TARGET'] = predictions

# Save the submission dataframe
submit.to_csv('random_forest_baseline.csv', index = False)