def tfidf(table, group_by=None, **params): # This will be deprecated.
check_required_parameters(_tfidf, params, ['table'])
params = get_default_from_parameters_if_required(params, _tfidf)
param_validation_check = [greater_than_or_equal_to(params, 0, 'min_df'),
greater_than_or_equal_to(params, 2, 'num_voca'),
greater_than(params, 0, 'max_df')]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_tfidf, table, group_by=group_by, **params)
else:
return _tfidf(table, **params)
def mean_shift(table, group_by=None, **params):
check_required_parameters(_mean_shift, params, ['table'])
params = get_default_from_parameters_if_required(params, _mean_shift)
param_validation_check = [greater_than(params, 0.0, 'bandwidth')]
validate(*param_validation_check)
if group_by is not None:
grouped_model = _function_by_group(_mean_shift, table, group_by=group_by, **params)
return grouped_model
else:
return _mean_shift(table, **params)
def _split_data(table,
train_ratio=7.0,
test_ratio=3.0,
random_state=None,
shuffle=True,
stratify=None):
validate(greater_than(train_ratio, 0.0, 'train_ratio'),
greater_than(test_ratio, 0.0, 'test_ratio'))
ratio = test_ratio / (train_ratio + test_ratio)
out_table_train, out_table_test = sktrain_test_split(
table,
test_size=ratio,
random_state=random_state,
shuffle=shuffle,
stratify=stratify)
return {
'train_table': out_table_train.reset_index(drop=True),
'test_table': out_table_test.reset_index(drop=True)
}
def profile_table(table, group_by=None, **params):
check_required_parameters(_profile_table, params, ['table'])
params = get_default_from_parameters_if_required(params, _profile_table)
param_validation_check = [greater_than_or_equal_to(params, 1, 'bins'),
greater_than(params, 0.0, 'correlation_threshold')]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_profile_table, table, group_by=group_by, **params)
else:
return _profile_table(table, **params)
def _pairplot(table,
x_vars,
y_vars=None,
kind='scatter',
diag_kind='auto',
markers=None,
palette=None,
height=2.5,
aspect=1,
dropna=True,
hue=None):
validate(greater_than(height, 0, 'height'),
greater_than(aspect, 0, 'aspect'))
s_default = plt.rcParams['lines.markersize']**2.
plot_kws = {"s": s_default * height / 6.4}
if y_vars is None:
y_vars = x_vars
if kind == 'scatter':
g = sns.pairplot(table, x_vars=x_vars, y_vars=y_vars, kind=kind, diag_kind=diag_kind, markers=markers, height=height, aspect=aspect, \
dropna=dropna, hue=hue, palette=palette, plot_kws=plot_kws)
else:
scatter_kws = {'scatter_kws': plot_kws}
g = sns.pairplot(table, x_vars=x_vars, y_vars=y_vars, kind=kind, diag_kind=diag_kind, markers=markers, height=height, aspect=aspect, \
dropna=dropna, hue=hue, palette=palette, plot_kws=scatter_kws)
if height <= 2.5:
for ax in g.axes.flatten():
for label in ax.get_xticklabels():
label.set_rotation(90 * (2.5 - height))
rb = BrtcReprBuilder()
rb.addPlt(plt)
plt.clf()
return {'result': {'_repr_brtc_': rb.get()}}
def bow(table, group_by=None, **params):
check_required_parameters(_bow, params, ['table'])
params = get_default_from_parameters_if_required(params, _bow)
param_validation_check = [
greater_than_or_equal_to(params, 0, 'no_below'),
less_than_or_equal_to(params, 1.0, 'no_above'),
greater_than(params, 0.0, 'no_above'),
greater_than_or_equal_to(params, 1, 'keep_n')
]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_bow, table, group_by=group_by, **params)
else:
return _bow(table, **params)
def naive_bayes_train(table, group_by=None, **params):
params = get_default_from_parameters_if_required(params,
_naive_bayes_train)
param_validation_check = [greater_than(params, 0, 'alpha')]
validate(*param_validation_check)
check_required_parameters(_naive_bayes_train, params, ['table'])
if group_by is not None:
return _function_by_group(_naive_bayes_train,
table,
group_by=group_by,
**params)
else:
return _naive_bayes_train(table, **params)
def lda(table, group_by=None, **params):
check_required_parameters(_lda, params, ['table'])
params = get_default_from_parameters_if_required(params, _lda)
param_validation_check = [greater_than_or_equal_to(params, 2, 'num_voca'),
greater_than_or_equal_to(params, 2, 'num_topic'),
from_to(params, 2, params['num_voca'], 'num_topic_word'),
greater_than_or_equal_to(params, 1, 'max_iter'),
greater_than(params, 1.0, 'learning_offset')]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_lda, table, group_by=group_by, **params)
else:
return _lda(table, **params)
def correlation(table, group_by=None, **params):
check_required_parameters(_correlation, params, ['table'])
params = get_default_from_parameters_if_required(params, _correlation)
param_validation_check = [
greater_than(params, 0, 'height'),
greater_than_or_equal_to(params, 1, 'corr_prec')
]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_correlation,
table,
group_by=group_by,
**params)
else:
return _correlation(table, **params)
def outlier_detection_tukey_carling(table, group_by=None, **params):
check_required_parameters(_outlier_detection_tukey_carling, params,
['table'])
params = get_default_from_parameters_if_required(
params, _outlier_detection_tukey_carling)
param_validation_check = [greater_than(params, 0.0, 'multiplier')]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_outlier_detection_tukey_carling,
table,
group_by=group_by,
**params)
else:
return _outlier_detection_tukey_carling(table, **params)
def kmeans_silhouette_train_predict(table, group_by=None, **params):
check_required_parameters(_kmeans_silhouette_train_predict, params, ['table'])
params = get_default_from_parameters_if_required(params, _kmeans_silhouette_train_predict)
param_validation_check = [all_elements_greater_than(params, 1, 'n_clusters_list'),
greater_than_or_equal_to(params, 1, 'n_init'),
greater_than_or_equal_to(params, 1, 'max_iter'),
greater_than(params, 0.0, 'tol'),
greater_than_or_equal_to(params, 1, 'n_jobs'),
greater_than_or_equal_to(params, 0, 'n_samples')]
validate(*param_validation_check)
if group_by is not None:
grouped_model = _function_by_group(_kmeans_silhouette_train_predict, table, group_by=group_by, **params)
return grouped_model
else:
return _kmeans_silhouette_train_predict(table, **params)
def decision_tree_regression_train(table, group_by=None, **params):
check_required_parameters(_decision_tree_regression_train, params, ['table'])
params = get_default_from_parameters_if_required(params, _decision_tree_regression_train)
param_validation_check = [greater_than_or_equal_to(params, 2, 'min_samples_split'),
greater_than_or_equal_to(params, 1, 'min_samples_leaf'),
greater_than_or_equal_to(params, 0.0, 'min_weight_fraction_leaf'),
greater_than_or_equal_to(params, 1, 'max_depth'),
greater_than_or_equal_to(params, 1, 'max_features'),
greater_than(params, 1, 'max_leaf_nodes'),
greater_than_or_equal_to(params, 0.0, 'min_impurity_split')]
validate(*param_validation_check)
if group_by is not None:
grouped_model = _function_by_group(_decision_tree_regression_train, table, group_by=group_by, **params)
return grouped_model
else:
return _decision_tree_regression_train(table, **params)
def ada_boost_regression_train(table, group_by=None, **params):
check_required_parameters(_ada_boost_regression_train, params, ['table'])
params = get_default_from_parameters_if_required(
params, _ada_boost_regression_train)
param_validation_check = [
greater_than_or_equal_to(params, 2, 'max_depth'),
greater_than_or_equal_to(params, 1, 'n_estimators'),
greater_than(params, 0, 'learning_rate')
]
validate(*param_validation_check)
if group_by is not None:
return _function_by_group(_ada_boost_regression_train,
table,
group_by=group_by,
**params)
else:
return _ada_boost_regression_train(table, **params)
def svm_classification_train(table, group_by=None, **params):
check_required_parameters(_svm_classification_train, params, ['table'])
params = get_default_from_parameters_if_required(
params, _svm_classification_train)
param_validation_check = [
over_to(params, 0.0, 1.0, 'c'),
greater_than_or_equal_to(params, 0, 'degree'),
greater_than(params, 0.0, 'tol')
]
validate(*param_validation_check)
if group_by is not None:
grouped_model = _function_by_group(_svm_classification_train,
table,
group_by=group_by,
**params)
return grouped_model
else:
return _svm_classification_train(table, **params)
def penalized_linear_regression_train(table, group_by=None, **params):
check_required_parameters(_penalized_linear_regression_train, params,
['table'])
params = get_default_from_parameters_if_required(
params, _penalized_linear_regression_train)
param_validation_check = [
greater_than_or_equal_to(params, 0.0, 'alpha'),
from_to(params, 0.0, 1.0, 'l1_ratio'),
greater_than_or_equal_to(params, 1, 'max_iter'),
greater_than(params, 0.0, 'tol')
]
validate(*param_validation_check)
if group_by is not None:
grouped_model = _function_by_group(_penalized_linear_regression_train,
table,
group_by=group_by,
**params)
return grouped_model
else:
return _penalized_linear_regression_train(table, **params)
def _profile_table(table,
bins=10,
check_correlation=False,
correlation_threshold=0.9,
correlation_overrides=None):
validate(greater_than_or_equal_to(bins, 1, 'bins'),
greater_than(correlation_threshold, 0.0, 'correlation_threshold'))
rb = BrtcReprBuilder()
profile = pd_profiling.ProfileReport(
table,
bins=bins,
check_correlation=check_correlation,
correlation_threshold=correlation_threshold,
correlation_overrides=correlation_overrides)
rb.addHTML(profile.html)
summary = dict()
summary['_repr_brtc_'] = rb.get()
return {'result': summary}
def _kmeans_silhouette_train_predict(table,
input_cols,
n_clusters_list=range(2, 10),
prediction_col='prediction',
init='k-means++',
n_init=10,
max_iter=300,
tol=1e-4,
precompute_distances='auto',
seed=None,
n_jobs=1,
algorithm='auto',
n_samples=None):
if n_samples is None:
n_samples = len(table)
inputarr = table[input_cols]
validate(all_elements_greater_than(n_clusters_list, 1, 'n_clusters_list'),
greater_than_or_equal_to(n_init, 1, 'n_init'),
greater_than_or_equal_to(max_iter, 1, 'max_iter'),
greater_than(tol, 0.0, 'tol'),
greater_than_or_equal_to(n_jobs, 1, 'n_jobs'),
greater_than_or_equal_to(n_samples, 0, 'n_samples'))
pca2_model = PCA(n_components=2).fit(inputarr)
pca2 = pca2_model.transform(inputarr)
silhouette_list = []
silouette_samples_list = []
models = []
centers_list = []
images = []
for k in n_clusters_list:
k_means = SKKMeans(n_clusters=k,
init=init,
n_init=n_init,
max_iter=max_iter,
tol=tol,
precompute_distances=precompute_distances,
verbose=0,
random_state=seed,
copy_x=True,
n_jobs=n_jobs,
algorithm=algorithm)
k_means.fit(inputarr)
models.append(k_means)
predict = k_means.labels_
centersk = k_means.cluster_centers_
centers_list.append(centersk)
score = silhouette_score(inputarr, predict)
silhouette_list.append(score)
samples = silhouette_samples(inputarr, predict)
silouette_samples_list.append(samples)
pca2_centers = pca2_model.transform(centersk)
_, (ax1, ax2) = plt.subplots(1, 2)
colors = cm.nipy_spectral(np.arange(k).astype(float) / k)
y_lower = 0
for i, color in zip(range(k), colors):
si = samples[predict == i]
si.sort()
sizei = si.shape[0]
y_upper = y_lower + sizei
ax1.fill_betweenx(np.arange(y_lower, y_upper),
0,
si,
facecolor=color,
edgecolor=color,
alpha=0.7)
y_lower = y_upper
ax2.scatter(pca2[:, 0][predict == i],
pca2[:, 1][predict == i],
color=color)
ax1.axvline(x=score, color="red")
ax2.scatter(pca2_centers[:, 0],
pca2_centers[:, 1],
marker='x',
edgecolors=1,
s=200,
color=colors)
imagek = plt2MD(plt)
plt.clf()
images.append(imagek)
argmax = np.argmax(silhouette_list)
best_k = n_clusters_list[argmax]
best_model = models[argmax]
predict = best_model.predict(inputarr)
best_centers = best_model.cluster_centers_
best_labels = best_model.labels_
fig_centers = _kmeans_centers_plot(input_cols, best_centers)
fig_samples = _kmeans_samples_plot(table, input_cols, n_samples,
best_centers)
fig_pca = _kmeans_pca_plot(predict, best_centers, pca2_model, pca2)
x_clusters = range(len(n_clusters_list))
plt.xticks(x_clusters, n_clusters_list)
plt.plot(x_clusters, silhouette_list, '.-')
fig_silhouette = plt2MD(plt)
plt.clf()
rb = BrtcReprBuilder()
rb.addMD(
strip_margin("""
| ## Kmeans Silhouette Result
| - silloutte metrics:
| {fig_silhouette}
| - best K: {best_k}
| - best centers:
| {fig_pca}
| {fig_centers}
| {fig_samples}
|
""".format(fig_silhouette=fig_silhouette,
best_k=best_k,
fig_pca=fig_pca,
fig_centers=fig_centers,
fig_samples=fig_samples)))
for k, image in zip(n_clusters_list, images):
rb.addMD(
strip_margin("""
| ### k = {k}
| {image}
|
""".format(k=k, image=image)))
model = _model_dict('kmeans_silhouette')
model['best_k'] = best_k
model['best_centers'] = best_centers
model['best_model'] = best_model
model['input_cols'] = input_cols
model['_repr_brtc_'] = rb.get()
out_table = table.copy()
out_table[prediction_col] = predict
return {'out_table': out_table, 'model': model}
def _correlation(table, vars, method='pearson', height=2.5, corr_prec=2):
validate(greater_than(height, 0, 'height'),
greater_than_or_equal_to(corr_prec, 1, 'corr_prec'))
size = len(vars)
s_default = plt.rcParams['lines.markersize']**2.
scatter_kws = {"s": s_default * height / 6.4}
result_arr = []
for i in range(size):
for j in range(i):
if method == 'pearson':
r, p = stats.pearsonr(table[vars[i]], table[vars[j]])
elif method == 'spearman':
r, p = stats.spearmanr(table[vars[i]], table[vars[j]])
elif method == 'kendall':
r, p = stats.kendalltau(table[vars[i]], table[vars[j]])
result_arr.append([vars[i], vars[j], r, p])
df_result = pd.DataFrame(result_arr, columns=['x', 'y', 'corr', 'p_value'])
def corr(x, y, **kwargs):
if kwargs['method'] == 'pearson':
r, p = stats.pearsonr(x, y)
elif kwargs['method'] == 'spearman':
r, p = stats.spearmanr(x, y)
elif kwargs['method'] == 'kendall':
r, p = stats.kendalltau(x, y)
p_stars = ''
if p <= 0.05:
p_stars = '*'
if p <= 0.01:
p_stars = '**'
if p <= 0.001:
p_stars = '***'
corr_text = '{:.{prec}f}'.format(r, prec=corr_prec)
font_size = abs(r) * 15 * 2 / corr_prec + 5
ax = plt.gca()
ax.annotate(corr_text, [
.5,
.5,
],
xycoords="axes fraction",
ha='center',
va='center',
fontsize=font_size * height)
ax.annotate(p_stars,
xy=(0.65, 0.6),
xycoords=ax.transAxes,
color='red',
fontsize=17 * height)
g = sns.PairGrid(table, vars=vars, height=height)
g.map_diag(sns.distplot)
if method == 'pearson':
g.map_lower(sns.regplot, scatter_kws=scatter_kws)
else:
g.map_lower(sns.regplot, lowess=True, scatter_kws=scatter_kws)
g.map_upper(corr, method=method)
fig_corr = plt2MD(plt)
plt.clf()
rb = BrtcReprBuilder()
rb.addMD(
strip_margin(""" ## Correlation Results
| ### Correlation Matrix
| {fig_corr}
|
| ### Correlation Table
| {table}
""".format(fig_corr=fig_corr, table=pandasDF2MD(df_result))))
params = {'vars': vars, 'method': method, 'height': height}
res = dict()
res['params'] = params
res['corr_table'] = df_result
res['_repr_brtc_'] = rb.get()
return {'result': res}
def _kmeans_train_predict(table,
input_cols,
n_clusters=3,
prediction_col='prediction',
init='k-means++',
n_init=10,
max_iter=300,
tol=1e-4,
precompute_distances='auto',
seed=None,
n_jobs=1,
algorithm='auto',
n_samples=None):
inputarr = table[input_cols]
if n_samples is None:
n_samples = len(inputarr)
validate(greater_than_or_equal_to(n_clusters, 1, 'n_clusters'),
greater_than_or_equal_to(n_init, 1, 'n_init'),
greater_than_or_equal_to(max_iter, 1, 'max_iter'),
greater_than(tol, 0.0, 'tol'),
greater_than_or_equal_to(n_jobs, 1, 'n_jobs'),
greater_than_or_equal_to(n_samples, 0, 'n_samples'))
k_means = SKKMeans(n_clusters=n_clusters,
init=init,
n_init=n_init,
max_iter=max_iter,
tol=tol,
precompute_distances=precompute_distances,
verbose=0,
random_state=seed,
copy_x=True,
n_jobs=n_jobs,
algorithm=algorithm)
k_means.fit(inputarr)
params = {
'input_cols': input_cols,
'n_clusters': n_clusters,
'init': init,
'n_init': n_init,
'max_iter': max_iter,
'tol': tol,
'precompute_distances': precompute_distances,
'seed': seed,
'n_jobs': n_jobs,
'algorithm': algorithm
}
cluster_centers = k_means.cluster_centers_
labels = k_means.labels_
pca2_model = PCA(n_components=2).fit(inputarr)
pca2 = pca2_model.transform(inputarr)
fig_centers = _kmeans_centers_plot(input_cols, cluster_centers)
fig_samples = _kmeans_samples_plot(table, input_cols, n_samples,
cluster_centers)
fig_pca = _kmeans_pca_plot(labels, cluster_centers, pca2_model, pca2)
rb = BrtcReprBuilder()
rb.addMD(
strip_margin("""
| ## Kmeans Result
| - Number of iterations run: {n_iter_}.
| - Coordinates of cluster centers
| {fig_cluster_centers}
| - Samples
| {fig_pca}
| {fig_samples}
|
| ### Parameters
| {params}
""".format(n_iter_=k_means.n_iter_,
fig_cluster_centers=fig_centers,
fig_pca=fig_pca,
fig_samples=fig_samples,
params=dict2MD(params))))
model = _model_dict('kmeans')
model['model'] = k_means
model['input_cols'] = input_cols
model['_repr_brtc_'] = rb.get()
out_table = table.copy()
out_table[prediction_col] = labels
return {'out_table': out_table, 'model': model}
