Depmap Tools

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

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

Available Tools

compute_depmap24q2_gene_correlations (Type: RemoteTool)

Analyzes gene-gene correlations from DepMap CRISPR knockout screening data. This tool validates g…

compute_depmap24q2_gene_correlations tool specification

Tool Information:

  • Name: compute_depmap24q2_gene_correlations

  • Type: RemoteTool

  • Description: Analyzes gene-gene correlations from DepMap CRISPR knockout screening data. This tool validates genetic interactions using empirical cell viability data from 1,320+ cancer cell lines in the DepMap 24Q2 dataset. It determines if two genes have correlated knockout effects, providing insights into genetic dependencies and synthetic lethal relationships.

Parameters:

  • gene_a (string) (required) First gene symbol for correlation analysis (e.g., ‘BRAF’, ‘TP53’). Must use standard HUGO gene nomenclature.

  • gene_b (string) (required) Second gene symbol for correlation analysis (e.g., ‘MAPK1’, ‘MDM2’). Must use standard HUGO gene nomenclature.

  • data_dir (string) (optional) Path to directory containing DepMap correlation matrices. If None, uses DEPMAP_DATA_PATH/depmap_24q2.

Example Usage:

query = {
    "name": "compute_depmap24q2_gene_correlations",
    "arguments": {
        "gene_a": "example_value",
        "gene_b": "example_value"
    }
}
result = tu.run(query)