Genome Report

Analyze 23andMe raw genome data to generate comprehensive health, trait, and family comparison reports. Supports cardiovascular, cognitive, metabolic, pharmacogenomic, athletic, and ancestry analysis. Use when user asks to analyze genome data, 23andMe files, genetic reports, SNP analysis, health risk from DNA, or family genetic comparison.

Analyze 23andMe v5 raw data files and generate health/trait reports with risk scoring.

Usage

bash

python3 skills/genome-report/scripts/genome_report.py <genome_file.txt> [options]

Options

Flag	Values	Default	Description
--category	all|cardio|cognitive|metabolic|pharma|athletic|traits	all	Category filter
--output	text|json|html	text	Output format
--output-path	filepath	auto	HTML output path
--family DIR	directory path	—	Family comparison mode

Examples

bash

# Full report to console
python3 skills/genome-report/scripts/genome_report.py ~/my_genome.txt

# HTML report for one category
python3 skills/genome-report/scripts/genome_report.py ~/my_genome.txt --category cardio --output html

# Family comparison
python3 skills/genome-report/scripts/genome_report.py --family ~/genomes/ --output html

Input Format

23andMe v5 raw data (tab-separated): rsid chromosome position genotype

Lines starting with # are skipped. Genotypes marked -- (no-call) are excluded.

Output

• Text: Console output with risk bars and color-coded SNP details
• JSON: Structured data with scores and per-SNP results
• HTML: Styled report with risk score cards and color-coded tables

Categories & Coverage

~55 curated SNPs across 6 categories:

• Cardiovascular — blood pressure, cholesterol, cardiac rhythm, CAD risk
• Cognitive — memory, dopamine, BDNF, social cognition, brain volume
• Metabolic — diabetes risk, MTHFR, lactose, alcohol, iron metabolism
• Pharmacogenomics — warfarin, clopidogrel, CYP2D6, CYP2C19 drug metabolism
• Athletic — muscle fiber type, endurance, recovery, injury risk
• Traits — eye color, hair color, earwax, bitter taste, asparagus smell

SNP Database

The SNP reference data lives in references/snp_database.json. Edit this file to add/update SNPs without changing the script. Each entry has: rsid, gene, category, trait, risk_allele, and genotype-specific effect descriptions.

Constraints

• Pure Python 3.9+ — no external dependencies
• Not medical advice — educational/informational only