Immune Compass Tools

Configuration File: remote_tools/immune_compass_tools.json Tool Type: Remote Tools Count: 1

This page contains all tools defined in the immune_compass_tools.json configuration file.

Available Tools

run_compass_prediction (Type: RemoteTool)

Predicts immune checkpoint inhibitor (ICI) response using COMPASS model. This tool analyzes singl…

run_compass_prediction tool specification

Tool Information:

  • Name: run_compass_prediction

  • Type: RemoteTool

  • Description: Predicts immune checkpoint inhibitor (ICI) response using COMPASS model. This tool analyzes single-sample tumor gene expression data to predict patient responsiveness to immune checkpoint inhibitor therapy. The COMPASS model leverages immune cell concept analysis to provide both a binary prediction and interpretable insights into the immune microenvironment factors driving the prediction.

Parameters:

  • gene_expression_data_path (string) (required) Path to the TPM expression data file. Keys should be standard gene symbols (e.g., ‘CD274’, ‘PDCD1’, ‘CTLA4’). Values should be normalized expression in TPM (Transcripts Per Million). Minimum ~100 genes recommended for reliable predictions.

  • threshold (number) (required) Probability threshold for responder classification (0.0-1.0). Values ≥ threshold classify sample as likely responder. Default 0.5 provides balanced sensitivity/specificity. Consider lower thresholds (~0.3) for higher sensitivity.

  • root_path (string) (required) Path to the directory containing model checkpoints. If None, uses COMPASS_MODEL_PATH/immune-compass/checkpoint.

Example Usage:

query = {
    "name": "run_compass_prediction",
    "arguments": {
        "gene_expression_data_path": "example_value",
        "threshold": "example_value",
        "root_path": "example_value"
    }
}
result = tu.run(query)