Annotate Variants
Description
--- description: Annotate and clinically interpret variants from a VCF. Use when the user has variant calls and wants functional annotation, ACMG classification, oncogenicity, or clinical tiers. argument-hint: [vcf-file] [tumour-type] allowed-tools: Read Grep Glob Bash(bcftools *) --- Annotate the variants in `$0` for tumour type `$1`. Follow the `variant-annotation` skill. Order matters: 1. **Normalize first**: `bcftools norm -m -any -f <ref>`. Un-normalized records fail knowledgebase lookup
Installation
Installs to ~/.claude/commands/zamushwani-biomedical-ai-skills-annotate-variants.md
mkdir -p ~/.claude/commands && curl -fsSL https://raw.githubusercontent.com/zamushwani/biomedical-ai-skills/HEAD/.claude/commands/annotate-variants.md -o ~/.claude/commands/zamushwani-biomedical-ai-skills-annotate-variants.md Restart Claude Code, or start a new session, for it to be picked up.
Full documentation available on GitHub
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