The feature engineering process involves selecting the minimum required features to produce a valid model because the more features a model contains, the more complex it is (and the more sparse the data), therefore the more sensitive the model is to errors due to variance. A common approach to eliminating features is to describe their relative importance to a model, then eliminate weak features or combinations of features and re-evalute to see if the model fairs better during cross-validation.
Many model forms describe the underlying impact of features relative to each
other. In scikit-learn, Decision Tree models and ensembles of trees such as
Random Forest, Gradient Boosting, and Ada Boost provide a
feature_importances_ attribute when fitted. The Yellowbrick
FeatureImportances visualizer utilizes this attribute to rank and plot
relative importances. Let’s start with an example; first load a
Then we can create a new figure (this is
optional, if an
Axes isn’t specified, Yellowbrick will use the current
figure or create one). We can then fit a
GradientBoostingClassifier to visualize the ranked features.
from sklearn.ensemble import RandomForestClassifier from yellowbrick.datasets import load_occupancy from yellowbrick.features import FeatureImportances # Load the classification data set X, y = load_occupancy() model = RandomForestClassifier(n_estimators=10) viz = FeatureImportances(model) viz.fit(X, y) viz.poof()
The above figure shows the features ranked according to the explained variance
each feature contributes to the model. In this case the features are plotted
against their relative importance, that is the percent importance of the
most important feature. The visualizer also contains
feature_importances_ attributes to get the ranked numeric values.
For models that do not support a
feature_importances_ attribute, the
FeatureImportances visualizer will also draw a bar plot for the
attribute that many linear models provide.
When using a model with a
coef_ attribute, it is better to set
relative=False to draw the true magnitude of the coefficient (which may
be negative). We can also specify our own set of labels if the dataset does
not have column names or to print better titles. In the example below we
title case our features for better readability:
from sklearn.linear_model import Lasso from yellowbrick.datasets import load_concrete from yellowbrick.features import FeatureImportances # Load the regression dataset dataset = load_concrete(return_dataset=True) X, y = dataset.to_data() # Title case the feature for better display and create the visualizer labels = list(map(lambda s: s.title(), dataset.meta['features'])) viz = FeatureImportances(Lasso(), labels=labels, relative=False) # Fit and show the feature importances viz.fit(X, y) viz.poof()
The interpretation of the importance of coeficients depends on the model; see the discussion below for more details.
Stacked Feature Importances¶
Some estimators return a multi-dimensonal array for either
coef_ attributes. For example the
LogisticRegression classifier returns a
coef_ array in the shape of
(n_classes, n_features) in the multiclass case. These coefficients map the importance of the feature to the prediction of the probability of a specific class. Although the interpretation of multi-dimensional feature importances depends on the specific estimator and model family, the data is treated the same in the
FeatureImportances visualizer – namely the importances are averaged.
Taking the mean of the importances may be undesirable for several reasons. For example, a feature may be more informative for some classes than others. Multi-output estimators also do not benefit from having averages taken across what are essentially multiple internal models. In this case, use the
stack=True parameter to draw a stacked bar chart of importances as follows:
from yellowbrick.features import FeatureImportances from sklearn.linear_model import LogisticRegression from sklearn.datasets import load_iris data = load_iris() X, y = data.data, data.target model = LogisticRegression(multi_class="auto", solver="liblinear") viz = FeatureImportances(model, stack=True, relative=False) viz.fit(X, y) viz.poof()
Generalized linear models compute a predicted independent variable via the linear combination of an array of coefficients with an array of dependent variables. GLMs are fit by modifying the coefficients so as to minimize error and regularization techniques specify how the model modifies coefficients in relation to each other. As a result, an opportunity presents itself: larger coefficients are necessarily “more informative” because they contribute a greater weight to the final prediction in most cases.
Additionally we may say that instance features may also be more or less “informative” depending on the product of the instance feature value with the feature coefficient. This creates two possibilities:
- We can compare models based on ranking of coefficients, such that a higher coefficient is “more informative”.
- We can compare instances based on ranking of feature/coefficient products such that a higher product is “more informative”.
In both cases, because the coefficient may be negative (indicating a strong negative correlation) we must rank features by the absolute values of their coefficients. Visualizing a model or multiple models by most informative feature is usually done via bar chart where the y-axis is the feature names and the x-axis is numeric value of the coefficient such that the x-axis has both a positive and negative quadrant. The bigger the size of the bar, the more informative that feature is.
This method may also be used for instances; but generally there are very many instances relative to the number models being compared. Instead a heatmap grid is a better choice to inspect the influence of features on individual instances. Here the grid is constructed such that the x-axis represents individual features, and the y-axis represents individual instances. The color of each cell (an instance, feature pair) represents the magnitude of the product of the instance value with the feature’s coefficient for a single model. Visual inspection of this diagnostic may reveal a set of instances for which one feature is more predictive than another; or other types of regions of information in the model itself.
Implementation of a feature importances visualizer. This visualizer sits in kind of a weird place since it is technically a model scoring visualizer, but is generally used for feature engineering.
FeatureImportances(model, ax=None, labels=None, relative=True, absolute=False, xlabel=None, stack=False, colors=None, colormap=None, **kwargs)¶
Displays the most informative features in a model by showing a bar chart of features ranked by their importances. Although primarily a feature engineering mechanism, this visualizer requires a model that has either a
feature_importances_parameter after fit.
Note: Some classification models such as
coef_as a multidimensional array of shape
(n_classes, n_features). In this case, the
FeatureImportancesvisualizer computes the mean of the
coefs_by class for each feature.
- model : Estimator
A Scikit-Learn estimator that learns feature importances. Must support either
- ax : matplotlib Axes, default: None
The axis to plot the figure on. If None is passed in the current axes will be used (or generated if required).
- labels : list, default: None
A list of feature names to use. If a DataFrame is passed to fit and features is None, feature names are selected as the column names.
- relative : bool, default: True
If true, the features are described by their relative importance as a percentage of the strongest feature component; otherwise the raw numeric description of the feature importance is shown.
- absolute : bool, default: False
Make all coeficients absolute to more easily compare negative coefficients with positive ones.
- xlabel : str, default: None
The label for the X-axis. If None is automatically determined by the underlying model and options provided.
- stack : bool, default: False
If true and the classifier returns multi-class feature importance, then a stacked bar plot is plotted; otherwise the mean of the feature importance across classes are plotted.
- colors: list of strings
Specify colors for each bar in the chart if
- colormap : string or matplotlib cmap
Specify a colormap to color the classes if
- kwargs : dict
Keyword arguments that are passed to the base class and may influence the visualization as defined in other Visualizers.
>>> from sklearn.ensemble import GradientBoostingClassifier >>> visualizer = FeatureImportances(GradientBoostingClassifier()) >>> visualizer.fit(X, y) >>> visualizer.poof()
- features_ : np.array
The feature labels ranked according to their importance
- feature_importances_ : np.array
The numeric value of the feature importance computed by the model
- classes_ : np.array
The classes labeled. Is not None only for classifier.
Draws the feature importances as a bar chart; called from fit.
Finalize the drawing setting labels and title.
fit(self, X, y=None, **kwargs)¶
Fits the estimator to discover the feature importances described by the data, then draws those importances as a bar plot.
- X : ndarray or DataFrame of shape n x m
A matrix of n instances with m features
- y : ndarray or Series of length n
An array or series of target or class values
- kwargs : dict
Keyword arguments passed to the fit method of the estimator.
- self : visualizer
The fit method must always return self to support pipelines.