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Merge pull request #229 from alesis/gmm
SMEM for GMM
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examples/undocumented/python_modular/graphical/smem_1d_gmm.py
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from pylab import figure,show,connect,hist,plot,legend | ||
from numpy import array, append, arange, empty | ||
from shogun.Distribution import Gaussian, GMM | ||
from shogun.Features import RealFeatures | ||
import util | ||
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util.set_title('SMEM for 1d GMM example') | ||
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max_iter=100 | ||
max_cand=5 | ||
min_cov=1e-9 | ||
max_em_iter=1000 | ||
min_change=1e-9 | ||
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real_gmm=GMM(3) | ||
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real_gmm.set_nth_mean(array([-2.0]), 0) | ||
real_gmm.set_nth_mean(array([0.0]), 1) | ||
real_gmm.set_nth_mean(array([2.0]), 2) | ||
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real_gmm.set_nth_cov(array([[0.3]]), 0) | ||
real_gmm.set_nth_cov(array([[0.1]]), 1) | ||
real_gmm.set_nth_cov(array([[0.2]]), 2) | ||
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real_gmm.set_coef(array([0.3, 0.5, 0.2])) | ||
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generated=array([real_gmm.sample()]) | ||
for i in range(199): | ||
generated=append(generated, array([real_gmm.sample()]), axis=1) | ||
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feat_train=RealFeatures(generated) | ||
est_smem_gmm=GMM(3) | ||
est_smem_gmm.train(feat_train) | ||
print est_smem_gmm.train_smem(max_iter, max_cand, min_cov, max_em_iter, min_change) | ||
est_em_gmm=GMM(3) | ||
est_em_gmm.train(feat_train) | ||
print est_em_gmm.train_em(min_cov, max_em_iter, min_change) | ||
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min_gen=min(min(generated)) | ||
max_gen=max(max(generated)) | ||
plot_real=empty(0) | ||
plot_est_smem=empty(0) | ||
plot_est_em=empty(0) | ||
for i in arange(min_gen, max_gen, 0.001): | ||
plot_real=append(plot_real, array([real_gmm.cluster(array([i]))[3]])) | ||
plot_est_smem=append(plot_est_smem, array([est_smem_gmm.cluster(array([i]))[3]])) | ||
plot_est_em=append(plot_est_em, array([est_em_gmm.cluster(array([i]))[3]])) | ||
real_plot=plot(arange(min_gen, max_gen, 0.001), plot_real, "b") | ||
est_em_plot=plot(arange(min_gen, max_gen, 0.001), plot_est_em, "g") | ||
est_smem_plot=plot(arange(min_gen, max_gen, 0.001), plot_est_smem, "r") | ||
real_hist=hist(generated.transpose(), bins=50, normed=True, fc="gray") | ||
legend(("Real GMM", "Estimated EM GMM", "Estimated SMEM GMM")) | ||
connect('key_press_event', util.quit) | ||
show() |
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examples/undocumented/python_modular/graphical/smem_2d_gmm.py
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from pylab import figure,scatter,contour,show,legend,connect | ||
from numpy import array, append, arange, reshape, empty | ||
from shogun.Distribution import Gaussian, GMM | ||
from shogun.Features import RealFeatures | ||
import util | ||
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util.set_title('SMEM for 2d GMM example') | ||
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max_iter=100 | ||
max_cand=5 | ||
min_cov=1e-9 | ||
max_em_iter=1000 | ||
min_change=1e-9 | ||
cov_type=0 | ||
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real_gmm=GMM(3) | ||
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real_gmm.set_nth_mean(array([2.0, 2.0]), 0) | ||
real_gmm.set_nth_mean(array([-2.0, -2.0]), 1) | ||
real_gmm.set_nth_mean(array([2.0, -2.0]), 2) | ||
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real_gmm.set_nth_cov(array([[1.0, 0.2],[0.2, 0.5]]), 0) | ||
real_gmm.set_nth_cov(array([[0.2, 0.1],[0.1, 0.5]]), 1) | ||
real_gmm.set_nth_cov(array([[0.3, -0.2],[-0.2, 0.8]]), 2) | ||
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real_gmm.set_coef(array([0.3, 0.4, 0.3])) | ||
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generated=array([real_gmm.sample()]) | ||
for i in range(199): | ||
generated=append(generated, array([real_gmm.sample()]), axis=0) | ||
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generated=generated.transpose() | ||
feat_train=RealFeatures(generated) | ||
est_smem_gmm=GMM(3, cov_type) | ||
est_smem_gmm.train(feat_train) | ||
print est_smem_gmm.train_smem(max_iter, max_cand, min_cov, max_em_iter, min_change) | ||
est_em_gmm=GMM(3, cov_type) | ||
est_em_gmm.train(feat_train) | ||
print est_em_gmm.train_em(min_cov, max_em_iter, min_change) | ||
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min_x_gen=min(min(generated[[0]]))-0.1 | ||
max_x_gen=max(max(generated[[0]]))+0.1 | ||
min_y_gen=min(min(generated[[1]]))-0.1 | ||
max_y_gen=max(max(generated[[1]]))+0.1 | ||
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plot_real=empty(0) | ||
plot_est_smem=empty(0) | ||
plot_est_em=empty(0) | ||
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for i in arange(min_x_gen, max_x_gen, 0.05): | ||
for j in arange(min_y_gen, max_y_gen, 0.05): | ||
plot_real=append(plot_real, array([real_gmm.cluster(array([i, j]))[3]])) | ||
plot_est_smem=append(plot_est_smem, array([est_smem_gmm.cluster(array([i, j]))[3]])) | ||
plot_est_em=append(plot_est_em, array([est_em_gmm.cluster(array([i, j]))[3]])) | ||
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plot_real=reshape(plot_real, (arange(min_x_gen, max_x_gen, 0.05).shape[0], arange(min_y_gen, max_y_gen, 0.05).shape[0])) | ||
plot_est_smem=reshape(plot_est_smem, (arange(min_x_gen, max_x_gen, 0.05).shape[0], arange(min_y_gen, max_y_gen, 0.05).shape[0])) | ||
plot_est_em=reshape(plot_est_em, (arange(min_x_gen, max_x_gen, 0.05).shape[0], arange(min_y_gen, max_y_gen, 0.05).shape[0])) | ||
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real_plot=contour(arange(min_x_gen, max_x_gen, 0.05), arange(min_y_gen, max_y_gen, 0.05), plot_real.transpose(), colors="b") | ||
est_smem_plot=contour(arange(min_x_gen, max_x_gen, 0.05), arange(min_y_gen, max_y_gen, 0.05), plot_est_smem.transpose(), 3, colors="r") | ||
est_em_plot=contour(arange(min_x_gen, max_x_gen, 0.05), arange(min_y_gen, max_y_gen, 0.05), plot_est_em.transpose(), colors="g") | ||
real_scatter=scatter(generated[[0]], generated[[1]], c="gray") | ||
legend((real_plot.collections[0], est_em_plot.collections[0], est_smem_plot.collections[0]), ("Real GMM", "Estimated EM GMM", "Estimated SMEM GMM")) | ||
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connect('key_press_event', util.quit) | ||
show() |
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