plot.light_effects() has gained an argument recode_labels to modify the curve labels.add_shap(): Deprecated in favor of {kernelshap} or {fastshap}.type = "shap" in light_profile(), light_importance(), light_scatter(), and light_profile2d() is deprecated as well.plot_counts() is deprecated.light_recode() is deprecated.stats = "quartile"of light_effects() and light_profile() is deprecated.options() anymore.The following functions are now internal:
grouped_center()grouped_counts()grouped_stats()grouped_weighted_mean()all_identical()auto_cut()common_breaks()cut3()most_important() is not S3 anymore.plot.light_breakdown() and plot.light_importance() do not use flipped coordinates anymore.light_effects() and light_profile() will be removed. It has no effect anymore.The following breaking changes are intended for version 1.0.0.
add_shap(): Deprecated in favor of {kernelshap} or {fastshap}.type = "shap" in light_profile(), light_importance(), light_scatter(), and light_profile2d() is deprecated as well.plot_counts(): Deprecated. Might later be replaced by {ggside}.stats = "quartiles in light_profile() and light_effects().These functions will become internal in {flashlight} 1.0.0. Most likely you have never used any of them.
grouped_center()grouped_counts()grouped_stats()grouped_weighted_mean()light_check()light_combine()light_recode() -> similar functionality will be added as option in light_effects()all_identical()auto_cut()cut3()Currently, predefined column names in data objects returned by light_*() functions can be changed via options(). For instance, the model name is stored in column "label", which can be changed via option flashlight.label_name = "label".
In {flashlight} 1.0.0, these options will vanish. To avoid clashs with existing feature names, we will use exotic column names such as "label_" instead. As a consequence, data returned by light_*() functions will have different column names.
light_profile2d for 2D plots of partial dependence and other profiles (residuals, predictions, response, SHAP).Added logo
All zzz_names arguments are deprecated and are set as options(flashlight.zzz_names = ...) instead.
light_ice and light_scatter now use override.aes to suppress alpha in legend.
Greatly improved error messages.
Bug fixes.
Another maintenance release to remove dependency on ggpubr.
This is a maintenance release to deal with an issue with XGBoost.
This is a documentation and maintainance release.
Switched to dplyr 1.0.0.
Added 270+ unit tests.
Added vignettes on how to use flashlight with caret and mlr3.
light_breakdown have been slightly improved.light_effects and light_profile did not work correctly if pred are provided together with a pd_indices.
Using pred in light_effects and light_profile with a multiflashlight will now produce an informative error.
light_interaction now uses a default grid size of 200 instead of 30 to calculate partial dependency profiles. Furthermore, the used sample size to calculate the interaction statistics have been increased from 300 to 1000. The two changes improve considerably the stability of the results at the price of a substantial increase in runtime. For slow prediction functions, choose lower values as suitable.Like for light_effects, the plot method of light_profile has received an argument show_points to suppress the plotting of points.
The plot method for light_performance has received a geom argument. It allows to switch from bars to points.
Now requires at least tidyr >= 1.0.0 since expand_grid is used to calculate ICE profiles.
R dependency has been lowered from 3.5 to 3.1.
Removed suggested packages caret and lubridate.
Emergency release. Fixes a problem introduced with ggplot 3.3.0 when plotting light_importance and light_interaction objects.
light_global_surrogate and plot.light_global_surrogate to create a global surrogate tree model that explains predictions from the original model in a simple to understand way.Added light_scatter and plot.light_scatter to create scatter plots of response, predictions, residuals, or SHAP values by some variable.
Static (approximate) SHAP values can be added to a (multi-)flashlight by calling add_shap.
light_importance, light_profile, and light_scatter are now able to work with SHAP values.
The plot functions of light_importance, light_interaction, and light_profile now prints informative labels to show what is actually calculated.
Added argument "show_points" to plot.light_effects to control if points should be added to the lines or not. Default is TRUE.
Removed currently unused output columns "value_shuffled" and "value_before" of light_importance due to its incompatibility with the new "shap" importances.
Added argument "type_name" to light_interaction. Its output now also contains a slot type as well as type_name.
Added Friedman's H statistic (global and pairwise interaction strength) to light_interaction with variants.
Added random permutation visit strategy to light_breakdown, serving as approximate SHAP.
Added more options how to center light_ice: Mean center each profile to the same value (within "by" groups) and 0-mean center each profile.
Added option rotate_x to plot_light_breakdown and plot_light_importance.
Added function grouped_center to allow grouped and weighted 0-mean centering of a numeric variable.
Added function grouped_count to allow grouped and weighted counts.
Added function grouped_weighted_mean for fast grouped weighted means.
response, residuals, and predict now have a method for multiflashlights.
Combined arguments center = TRUE/FALSE and center_at to one argument center with default "no". This affects light_ice, and light_profile.
order_by_importance argument to light_breakdown has been replaced by visit_strategy.
Removed top_m argument of light_breakdown as it does not make sense.
auto_cut, the workhorse behind quantile binning a numeric input variable x, is now using ecdf based quantiles in order to ensure all evaluation points are in the domain of x.
Centering at "first", "middle", and "last" in light_ice now anchors the curves at 0 to be in line with other implementations.
light_ice was based on dplyr::crossing, unintentionally throwing away duplicate reference rows. This is now replaced by dplyr::expand_grid.Added light_interaction, a measure of overall interaction strength per covariable based on standard deviation across c-ICE curves.
Added the option m_repetitions = 1 to light_importance. Set to higher value to get more stable estimates of variable importance as well as standard errors for small data.
Added the option digits to plot_counts with default 0. Helps to format large counts or fractional counts.
Added to option center_at to light_ice in order to control if ICE curves should be centered at position "first", "middle", or "last". Similarly, added pd_center_at to light_profile.
plot-method of light_ice.Added type = "ale" to light_profile to show accumulated local effects plots (ALE plots). They are now also calculated by light_effects. In the plot method, set use = "all" to show all profiles. The default is all without ALE plots.
Added the possibility to center ICE curves at first evaluation point to improve visibility of interactions. Together with partial dependence with quartile aggregation, this is an interesting possibility to detect interactions.
grouped_stats has received an argument value_name.
Option cut_type was not active for partial dependence profiles.
Option cut_tpye was not active for the multiflashlight method of light_profile.
zero_counts argument in plot_counts.zero_counts in plot_counts and plot.light_effects had no effect for single flashlights with no "by" variable. This is fixed.This is the initial release.