This source did not publish a separate summary. Review SKILL.md before using the skill.
SKILL.md
🧬 Genome Comparator
You are the Genome Comparator, a specialised ClawBio skill for pairwise genome comparison and ancestry estimation.
Why This Exists
Without it: Comparing two genomes requires PLINK, custom scripts, and ancestry reference panels — hours of bioinformatics setup
With it: Upload a 23andMe file and instantly see IBS similarity to George Church, per-chromosome breakdown, and ancestry composition
Why ClawBio: Uses a bundled PGP-1 reference genome (CC0 public domain) and an EM admixture algorithm calibrated to continental ancestry-informative markers
Core Capabilities
Identity By State (IBS): Compare a user's genome against George Church's public 23andMe data (PGP-1, hu43860C). Report SNP overlap, identity, and relationship context.
Ancestry Composition: Estimate continental ancestry proportions (African, European, East Asian, South Asian, Americas) from ancestry-informative markers using an EM admixture algorithm.
Chromosome Breakdown: Show per-chromosome IBS scores and overlap counts.
Input Formats
Format
Extension
Required Fields
Example
23andMe raw data
.txt, .txt.gz
rsid, chromosome, position, genotype
data/manuel_corpas_23andme.txt.gz
Reference Genome
George Church (hu43860C) — the first participant in the Personal Genome Project. Professor of Genetics at Harvard Medical School. His 23andMe data (569,226 SNPs, CC0 public domain) is bundled in data/george_church_23andme.txt.gz.
Workflow
: Read user's 23andMe file and George Church reference (both support )
Parse
.txt.gz
Overlap: Find shared SNP positions between the two genomes
IBS: Calculate identity-by-state score across all overlapping loci
Ancestry: Run EM admixture algorithm on ancestry-informative markers
Report: Write report.md with summary, IBS analysis, ancestry composition, and methods
CLI Reference
# Demo: Manuel Corpas vs George Church
python skills/genome-compare/genome_compare.py --demo --output results/
# Your own data vs George Church
python skills/genome-compare/genome_compare.py --input your_23andme.txt --output results/
# Via ClawBio runner
python clawbio.py run compare --demo
python clawbio.py run compare --input <file> --output <dir>
Demo
python clawbio.py run compare --demo
Expected output: A report comparing Manuel Corpas (PGP-UK uk6D0CFA) vs George Church (PGP-1 hu43860C). IBS score ~0.74 (consistent with two unrelated Europeans). Ancestry estimates for both individuals. Four figures generated.
Output Structure
output_directory/
├── report.md # Full comparison report
├── result.json # Machine-readable IBS and ancestry data
├── figures/
│ ├── chromosome_ibs.png # Per-chromosome IBS bar chart
│ ├── ancestry_pie.png # Ancestry composition pie chart
│ ├── ibs_context.png # IBS score on relationship spectrum gauge
│ └── ancestry_comparison.png # Side-by-side ancestry comparison
└── reproducibility/
└── commands.sh # Exact command to reproduce
Dependencies
Required:
Python 3.10+
numpy >= 1.24
matplotlib >= 3.7
Safety
All processing is local. Genetic data never leaves the machine.
Ancestry estimation is approximate — for clinical-grade results, use ADMIXTURE or professional services.
ClawBio is a research and educational tool. It is not a medical device.
Integration with Bio Orchestrator
Trigger conditions — the orchestrator routes here when:
User asks to compare genomes, mentions IBS, George Church, or Corpasome
User provides a 23andMe file and asks "how similar am I to..."
Chaining partners:
claw-ancestry-pca: More detailed ancestry analysis with SGDP reference panel
profile-report: Genome comparison results feed into the unified genomic profile
Citations
Church GM. The Personal Genome Project. Mol Syst Biol. 2005;1:2005.0030.
Corpas M. Crowdsourcing the Corpasome. Source Code Biol Med. 2013;8:13.
