Giab Tools#

Configuration File: giab_tools.json Tool Type: Local Tools Count: 1

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

Available Tools#

GIAB_list_directory (Type: GIABTool)#

Browse NIST Genome in a Bottle’s (GIAB) benchmark file release tree – the reference-standard hig…

GIAB_list_directory tool specification

Tool Information:

  • Name: GIAB_list_directory

  • Type: GIABTool

  • Description: Browse NIST Genome in a Bottle’s (GIAB) benchmark file release tree – the reference-standard high-confidence variant (VCF) and callable-region (BED) sets used to validate variant-calling pipelines for samples HG001-HG007. There is no JSON API for this data, only a directory listing, so this tool navigates it: an empty path lists top-level trios/samples; e.g. path=’AshkenazimTrio/HG002_NA24385_son/NISTv4.2.1/GRCh38’ lists that release’s benchmark VCF/BED files with direct download URLs.

Parameters:

  • path ([‘string’, ‘null’]) (optional) Path relative to the GIAB release root, e.g. ‘’ (top level), ‘AshkenazimTrio’, or ‘AshkenazimTrio/HG002_NA24385_son/NISTv4.2.1/GRCh38’. Default ‘’ lists top-level trios/samples.

Example Usage:

query = {
    "name": "GIAB_list_directory",
    "arguments": {
    }
}
result = tu.run(query)