bartMachine: Bayesian Additive Regression Trees

Share:

An advanced implementation of Bayesian Additive Regression Trees with expanded features for data analysis and visualization.

Author
Adam Kapelner and Justin Bleich (R package)
Date of publication
2016-05-12 14:47:18
Maintainer
Adam Kapelner <kapelner@qc.cuny.edu>
License
GPL-3
Version
1.2.3

View on CRAN

Man pages

automobile
Data concerning automobile prices.
bartMachine
Build a BART Model
bartMachineArr
Create an array of BART models for the same data.
bartMachineCV
Build BART-CV
bart_machine_get_posterior
Get Full Posterior Distribution
bart_machine_num_cores
Get Number of Cores Used by BART
bart_predict_for_test_data
Predict for Test Data with Known Outcomes
benchmark_datasets
benchmark_datasets
calc_credible_intervals
Calculate Credible Intervals
calc_prediction_intervals
Calculate Prediction Intervals
check_bart_error_assumptions
Check BART Error Assumptions
cov_importance_test
Importance Test for Covariate(s) of Interest
destroy_bart_machine
Destroy BART Model (deprecated - do not use!)
dummify_data
Dummify Design Matrix
get_sigsqs
Get Posterior Error Variance Estimates
get_var_counts_over_chain
Get the Variable Inclusion Counts
get_var_props_over_chain
Get the Variable Inclusion Proportions
interaction_investigator
Explore Pairwise Interactions in BART Model
investigate_var_importance
Explore Variable Inclusion Proportions in BART Model
k_fold_cv
Estimate Out-of-sample Error with K-fold Cross validation
linearity_test
Test of Linearity
pd_plot
Partial Dependence Plot
plot_convergence_diagnostics
Plot Convergence Diagnostics
plot_y_vs_yhat
Plot the fitted Versus Actual Response
predict.bartMachine
Make a prediction on data using a BART object
predict_bartMachineArr
Make a prediction on data using a BART array object
print
Summarizes information about a 'bartMachine' object.
rmse_by_num_trees
Assess the Out-of-sample RMSE by Number of Trees
set_bart_machine_num_cores
Set the Number of Cores for BART
summary
Summarizes information about a 'bartMachine' object.
var_selection_by_permute
Perform Variable Selection using Three Threshold-based...
var_selection_by_permute_cv
Perform Variable Selection Using Cross-validation Procedure

Files in this package

bartMachine
bartMachine/inst
bartMachine/inst/CITATION
bartMachine/inst/java
bartMachine/inst/java/bart_java.jar
bartMachine/inst/COPYRIGHTS
bartMachine/inst/doc
bartMachine/inst/doc/bartMachine.Rnw
bartMachine/inst/doc/bartMachine.pdf
bartMachine/NAMESPACE
bartMachine/CHANGELOG
bartMachine/data
bartMachine/data/automobile.RData
bartMachine/data/benchmark_datasets.RData
bartMachine/R
bartMachine/R/bart_package_summaries.R
bartMachine/R/bartMachine.R
bartMachine/R/bart_package_plots.R
bartMachine/R/bart_package_predicts.R
bartMachine/R/bart_package_inits.R
bartMachine/R/bart_package_data_preprocessing.R
bartMachine/R/bart_package_builders.R
bartMachine/R/bart_package_f_tests.R
bartMachine/R/bart_arrays.R
bartMachine/R/bart_package_cross_validation.R
bartMachine/R/bart_package_variable_selection.R
bartMachine/R/zzz.R
bartMachine/vignettes
bartMachine/vignettes/speed_zoomed4.pdf
bartMachine/vignettes/convergence_diagnostics4.pdf
bartMachine/vignettes/v70i04.bib
bartMachine/vignettes/speed_full4.pdf
bartMachine/vignettes/cov_test_width2.pdf
bartMachine/vignettes/friedman_function_interactions2.pdf
bartMachine/vignettes/pdp_stroke2.pdf
bartMachine/vignettes/cov_test_body_style2.pdf
bartMachine/vignettes/bartMachine.Rnw
bartMachine/vignettes/var_selection_plot2.pdf
bartMachine/vignettes/plot_y_vs_y_hat_cred_ints2.pdf
bartMachine/vignettes/var_imp_automobile_cc2.pdf
bartMachine/vignettes/covariate_test_age3.pdf
bartMachine/vignettes/cov_test_omnibus2.pdf
bartMachine/vignettes/plot_y_vs_y_hat_pred_ints2.pdf
bartMachine/vignettes/bart_normality_heteroskedasticity_2.pdf
bartMachine/vignettes/rmse_num_trees_3.pdf
bartMachine/vignettes/pdp_horsepower2.pdf
bartMachine/vignettes/glucose_partial_dependence2.pdf
bartMachine/vignettes/cov_test_top_10_2.pdf
bartMachine/MD5
bartMachine/java
bartMachine/java/AlgorithmTesting
bartMachine/java/AlgorithmTesting/DataSetupForCSVFile.java
bartMachine/java/AlgorithmTesting/DataAnalysis.java
bartMachine/java/AlgorithmTesting/package-info.java
bartMachine/java/README
bartMachine/java/OpenSourceExtensions
bartMachine/java/OpenSourceExtensions/StatUtil.java
bartMachine/java/OpenSourceExtensions/TDoubleHashSetAndArray.java
bartMachine/java/OpenSourceExtensions/UnorderedPair.java
bartMachine/java/OpenSourceExtensions/package-info.java
bartMachine/java/bartMachine
bartMachine/java/bartMachine/Tools.java
bartMachine/java/bartMachine/bartMachineTreeNode.java
bartMachine/java/bartMachine/bartMachineRegressionMultThread.java
bartMachine/java/bartMachine/bartMachineRegression.java
bartMachine/java/bartMachine/bartMachine_e_gibbs_base.java
bartMachine/java/bartMachine/bartMachineClassification.java
bartMachine/java/bartMachine/bartMachine_g_mh.java
bartMachine/java/bartMachine/bartMachine_b_hyperparams.java
bartMachine/java/bartMachine/bartMachine_d_init.java
bartMachine/java/bartMachine/bartMachine_a_base.java
bartMachine/java/bartMachine/bartMachine_h_eval.java
bartMachine/java/bartMachine/bartMachine_i_prior_cov_spec.java
bartMachine/java/bartMachine/Classifier.java
bartMachine/java/bartMachine/bartMachineClassificationMultThread.java
bartMachine/java/bartMachine/bartMachine_c_debug.java
bartMachine/java/bartMachine/bartMachine_f_gibbs_internal.java
bartMachine/java/bartMachine/StatToolbox.java
bartMachine/java/bartMachine/package-info.java
bartMachine/java/bartMachine/TreeArrayIllustration.java
bartMachine/java/bartMachine/TreeIllustration.java
bartMachine/java/CustomLogging
bartMachine/java/CustomLogging/SuperSimpleFormatter.java
bartMachine/java/CustomLogging/StdOutErrLevel.java
bartMachine/java/CustomLogging/package-info.java
bartMachine/build
bartMachine/build/vignette.rds
bartMachine/DESCRIPTION
bartMachine/man
bartMachine/man/bartMachineCV.Rd
bartMachine/man/calc_credible_intervals.Rd
bartMachine/man/var_selection_by_permute.Rd
bartMachine/man/bartMachineArr.Rd
bartMachine/man/predict_bartMachineArr.Rd
bartMachine/man/get_var_counts_over_chain.Rd
bartMachine/man/get_var_props_over_chain.Rd
bartMachine/man/automobile.Rd
bartMachine/man/bart_machine_get_posterior.Rd
bartMachine/man/k_fold_cv.Rd
bartMachine/man/dummify_data.Rd
bartMachine/man/plot_y_vs_yhat.Rd
bartMachine/man/check_bart_error_assumptions.Rd
bartMachine/man/pd_plot.Rd
bartMachine/man/bart_machine_num_cores.Rd
bartMachine/man/set_bart_machine_num_cores.Rd
bartMachine/man/destroy_bart_machine.Rd
bartMachine/man/investigate_var_importance.Rd
bartMachine/man/interaction_investigator.Rd
bartMachine/man/bart_predict_for_test_data.Rd
bartMachine/man/predict.bartMachine.Rd
bartMachine/man/benchmark_datasets.Rd
bartMachine/man/bartMachine.Rd
bartMachine/man/var_selection_by_permute_cv.Rd
bartMachine/man/rmse_by_num_trees.Rd
bartMachine/man/calc_prediction_intervals.Rd
bartMachine/man/print.Rd
bartMachine/man/plot_convergence_diagnostics.Rd
bartMachine/man/linearity_test.Rd
bartMachine/man/summary.Rd
bartMachine/man/cov_importance_test.Rd
bartMachine/man/get_sigsqs.Rd