Minimalistic exampleΒΆ

Demonstrate basic use of coroica.CoroICA

../_images/sphx_glr_plot_coroICAexample_001.png
import numpy as np
from coroica import CoroICA, UwedgeICA
from matplotlib import pyplot as plt
from sklearn.decomposition import FastICA
from sklearn.linear_model import LinearRegression
from sklearn.model_selection import cross_val_predict
from sklearn.pipeline import Pipeline

# generate data
X = np.random.randn(500, 25)
y = np.random.randn(500,)

group_index = np.zeros(500,)
group_index[150:] = 1

X[:, :10] = X[:, :10] + 2 * y.reshape(-1, 1)

X[:150, 5:20] += 3 * np.random.randn(150, 15).dot(np.random.randn(15, 15))
X[150:, 5:20] += 5 * np.random.randn(350, 15).dot(np.random.randn(15, 15))

# define coroICA-based pipeline
model_coroICA = Pipeline(steps=[
    ('coroICA', CoroICA(n_components=10,
                        timelags=[5, 10],
                        max_matrices='no_partitions',
                        pairing='allpairs')),
    ('regression', LinearRegression())])

# get cross-validated predictions with coroICA-based pipeline
y_hat_coroICA = cross_val_predict(
    model_coroICA,
    X,
    y,
    fit_params={'coroICA__group_index': group_index})

# define uwedgeICA-based pipeline (second-order-based, ignores groupstructure)
model_uwedgeICA = Pipeline(steps=[
    ('uwedgeICA', UwedgeICA(n_components=10)),
    ('regression', LinearRegression())])

# get cross-validated predictions with uwedgeICA-based pipeline
y_hat_uwedgeICA = cross_val_predict(
    model_uwedgeICA,
    X,
    y)

# define pooled fastica-based pipeline (ignores groupstructure)
model_fastica = Pipeline(steps=[
    ('fastica', FastICA(n_components=10)),
    ('regression', LinearRegression())])

# get cross-validated predictions with pooled fastica-based pipeline
y_hat_fastica = cross_val_predict(
    model_fastica,
    X,
    y)

# for comparison plot scatter of predictions against the true y
plt.plot(y, y_hat_coroICA,
         '.',
         label='coroICA (correlation with true y {:.2f})'.format(
             np.corrcoef(y, y_hat_coroICA)[0, 1]))

plt.plot(y, y_hat_uwedgeICA,
         '.',
         label='uwedgeICA (correlation with true y {:.2f})'.format(
             np.corrcoef(y, y_hat_uwedgeICA)[0, 1]))

plt.plot(y, y_hat_fastica,
         '.',
         label='pooled fastica (correlation with true y {:.2f})'.format(
             np.corrcoef(y, y_hat_fastica)[0, 1]))

plt.title('y vs y_hat')
plt.legend(loc='best')
plt.grid(True)
plt.xlabel('true y')
plt.ylabel('y_hat')

plt.show()

Total running time of the script: ( 0 minutes 9.671 seconds)

Gallery generated by Sphinx-Gallery