GTDB Get Genome

Overview

Get comprehensive metadata for a specific genome by NCBI accession from GTDB. Returns nucleotide statistics (genome size, GC%, contig count, N50), gene-level metrics (completeness via CheckM/CheckM2, contamination, SSU/LSU counts, protein count, coding density), NCBI metadata (assembly level, BioProject, BioSample, isolation source, geographic coordinates), and taxonomic history across GTDB releases. Useful for evaluating genome quality, finding genome properties, and tracking taxonomic changes across GTDB versions.

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed

1d ago

Last success

1d ago

Last latency

124ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "accession": {
      "description": "NCBI genome accession (e.g., 'GCF_000005845.2' for E. coli K-12, 'GCF_000009045.1' for B. subtilis)",
      "type": "string"
    },
    "operation": {
      "description": "Operation type (fixed: get_genome)",
      "enum": [
        "get_genome"
      ],
      "type": "string"
    }
  },
  "required": [
    "operation",
    "accession"
  ],
  "type": "object"
}

Examples (1)

{
  "accession": "P38398",
  "operation": ""
}

Identifiers

Catalog ID

tu_GTDB_get_genome

Tool name

GTDB_get_genome

Added

2026-04-30 22:47Z

Tags

tooluniverse