Evo2 Variant Effect Tools

Configuration File: evo2_variant_effect_tools.json Tool Type: Local Tools Count: 1

This page contains all tools defined in the evo2_variant_effect_tools.json configuration file.

Available Tools

Evo2_score_variant (Type: Evo2VariantEffectTool)

Zero-shot variant-effect scoring with NVIDIA-hosted Evo 2 (Arc Institute genome foundation model)…

Evo2_score_variant tool specification

Tool Information:

  • Name: Evo2_score_variant

  • Type: Evo2VariantEffectTool

  • Description: Zero-shot variant-effect scoring with NVIDIA-hosted Evo 2 (Arc Institute genome foundation model). Runs the model’s forward pass on the reference and alternate DNA windows and returns the delta log-likelihood (alt - ref). Negative = variant disfavored by the genome model (candidate deleterious). Two hosted sizes are selectable via model: evo2-40b (default, most accurate) and evo2-7b (smaller, faster). Hosted NIM API; requires NVIDIA_API_KEY. Complements NvidiaNIM_evo2 (which only generates sequences).

Parameters:

  • ref_sequence ([‘string’, ‘null’]) (optional) Reference DNA window (A/C/G/T/N). Use with alt_sequence (same length).

  • alt_sequence ([‘string’, ‘null’]) (optional) Alternate DNA window, same length/centering as ref_sequence.

  • sequence ([‘string’, ‘null’]) (optional) Reference DNA window for point-substitution mode (use with position + alternate).

  • position ([‘integer’, ‘null’]) (optional) 1-based position of the substituted base within sequence.

  • reference ([‘string’, ‘null’]) (optional) Optional reference base (single letter) at position, validated against sequence.

  • alternate ([‘string’, ‘null’]) (optional) Alternate base (single letter) substituted at position.

  • model (string) (optional) Hosted Evo 2 model size: evo2-40b (default, most accurate) or evo2-7b (smaller, faster).

Example Usage:

query = {
    "name": "Evo2_score_variant",
    "arguments": {
    }
}
result = tu.run(query)