dismech-notebook

name	dismech-notebook
description	DisMech rare disease knowledge mapped into Alhazen notebook memory
triggers	["disease mechanism curation","DisMech","rare disease knowledge graph"]

DisMech Notebook

Maps the Monarch Initiative DisMech rare-disease corpus into the Alhazen notebook's ICE (information-content-entity) model in TypeDB, using the cross-database schema mapper, so disease-mechanism knowledge is browsable and searchable alongside the rest of the notebook.

Triggers: disease mechanism curation, DisMech, rare disease knowledge graph

Prerequisites

• Docker + uv.
• alhazen-core installed and initialized: /plugin install alhazen-core@skillful-alhazen then /alhazen-core:init. (The SessionStart hook auto-runs init and loads this skill's schema.tql.)

Quick start

CLI="${CLAUDE_PLUGIN_ROOT}/dismech_notebook.py"
uv run --project "${CLAUDE_PLUGIN_ROOT}" python "$CLI" stats
uv run --project "${CLAUDE_PLUGIN_ROOT}" python "$CLI" search --query lysosomal

Commands

Command	Description
stats	Entity counts (diseases, mechanisms, terms)
list-diseases [--category C] [--limit N] [--offset N]	List diseases
show-disease --name NAME	Full detail for one disease
search --query TEXT [--limit N]	Search diseases and mechanisms

Read USAGE.md for the full reference.