Conservation Map

SkillDev tools

Compute per-position conservation/entropy for an aligned peptide MSA (aligned sequences).

Available today. Use it from your connected AI after setup.

No other account needed.

Connect ahel once, and every AI you use reads what you have installed.

Then ask your AI: use the Conservation Map skill

What this skill tells your AI

The instructions your AI receives, as published by lamm-mit/scienceclaw in skills/conservation-map/SKILL.md and read by ahel’s review.

Compute conservation for each alignment column from an MSA.

Accepts either:

--aligned-json (preferred): a JSON list of aligned sequences (safe even if sequences contain -)
--query: JSON list or ;-separated raw/aligned sequences (raw sequences will be aligned internally)

python3 scripts/run.py --aligned-json '["AGC--K","AGCFFK"]'
python3 scripts/run.py --query "AGCKNFFWKTFTSC;FCFWKTCT"

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