Package edu.cmu.tetrad.search

Class TestIGFCI_TCGA_Modern

java.lang.Object

edu.cmu.tetrad.search.TestIGFCI_TCGA_Modern

public class TestIGFCI_TCGA_Modern
extends Object

Modernized translation of the legacy TestIGFCI_TCGA harness.

What it does (TL;DR): - Loads a TCGA-style CSV (continuous or discrete). - Optionally applies tiered knowledge (e.g., omics -> phenotype). - Configures GFCI (or IGFCI if present) with INSTANCE-SPECIFIC score/test knobs. - Runs the search and writes the resulting PAG to .txt and .graphml.

How to run: - As a unit-style runner from IntelliJ or CLI, adjust the MAIN_* constants below. - Or integrate into your existing test suite.

Method Summary

Modifier and Type	Method	Description
static void	main(String[] args)	Main entry point for the application.

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details

main

public static void main(String[] args)
                 throws Exception

Main entry point for the application. Executes the workflow that includes loading data, configuring knowledge tiers, setting parameters, running a search algorithm, and saving outputs.

Parameters:

args - Command line arguments. These can be used to configure various aspects of the process if needed.

Throws:

Exception - If any errors occur during the execution of the workflow, such as reading data, configuring parameters, or saving the outputs.