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Replication materials

This folder contains the replication material and is structured as follows.

  1. code/ contains the R scripts for replicating all results in the manuscript.

  2. helpers/ contains a helper package that is loaded in some of the replication scripts.

We provide a Makefile for conveniently running the scripts in code/ (code for how to manually reproduce the results can be found in the Makefile) as follows.

Installing dependencies

Please run this first.

make dependencies

Running the simulation studies

make sim-all

Reproducing Figures in Section 4.4 and Appendix B2

make vis

Reproducing all other results

make all

Detailed list of files in ./code/

  • case-study.R -- SUPPORT2 data application
  • dependencies.R -- Script for installing all dependencies
  • environment-parent-faithfulness-violated.R -- Results in Appendix A5
  • faithfulness.R -- Results in Appendix B5
  • gcm-penalized.R and gcm-smooth.R -- Results in Appendix B6
  • identifiability.R -- Results in Figure E1
  • intro-binary.R -- Results in Figure 1
  • invariance-example.R -- Results in Appendix D
  • nonparametric.R -- Results in Appendix B7
  • run-simulation.R -- Results in Appendix B (see Makefile for details)
  • vis-simulation.R -- For visualizing the output of run-simulation.R