The Command Line Interface (CLI)

CLI Installation

Via Docker (requires Docker)

While we are getting close to providing a standalone application, the most reliable way to use the app is still via the provided Docker container. In this container, the command line interface is accessible and can be used directly. For example via:

docker run -it --rm -v HOST_DIR:CONTAINER_DIR olivierlabayle/targeted-estimation:TAG tmle --help

where HOST_DIR:CONTAINER_DIR will map the host directory HOST_DIR to the container's CONTAINER_DIR and TAG is the currently released version of the project.

Build (requires Julia)

Alternatively, provided you have Julia installed, you can build the app via:

julia --project deps/build_app.jl app

Bellow is a description of the functionalities offered by the CLI.

CLI Description

• Targeted Minimum Loss Based Estimation
• • Usage
  • Specifying Estimands
  • Specifying Estimators
  • • Estimators From A String
    • • Examples
      • Note on Cross-Validation
      • Note on GLM and GLMNet
    • Estimators Via A Julia File
  • Note on Outputs
• Merging TMLE outputs
• • Usage