ClawBio PharmGx Reporter skill

Overview

The `pharmgx-reporter` skill from ClawBio, a bioinformatics-native AI agent skill library. Parses a 23andMe or AncestryDNA raw genotype file (either GRCh37 or GRCh38, detected automatically), calls star-allele diplotypes for 12 pharmacogenes, maps each to a metaboliser phenotype (poor/intermediate/normal/rapid/ultra-rapid), and returns CPIC-guideline drug recommendations across 51 medications -- a real, named, clinically used pharmacogenomics standard, not generic genotyping. Its own SKILL.md states every recommendation 'traces to a published star-allele -> phenotype -> drug mapping', which this entry records as the skill's provenance-logging behaviour. Verified live via direct fetch of the skill's SKILL.md, its `evals/` directory, and the repository's own `skills/catalog.json`, which records this skill at `maturity_tier: ci-validated` (`ci_tested: true`, `has_tests: true`, `has_demo: true`) -- ClawBio's escalating maturity-tier system functioning as the closest analogue to a certification ladder found in this seeding pass. A sibling skill in the same repository, `clinical-variant-reporter` (ACMG classification from VCF/BCF), was considered but not seeded here: the same `catalog.json` records its status as `planned` and `maturity_tier: cli-registered` with `benchmark_validated: false`, i.e. not yet validated against the Genome in a Bottle truth sets an earlier research pass attributed to it, so this entry deliberately picks the more mature sibling instead of describing an aspirational capability as current state. Terms check: the repository's root LICENSE is MIT (confirmed by direct fetch), and this specific skill's own `SKILL.md` frontmatter and `catalog.json` entry both independently declare `license: MIT` with empty `model_license`/`data_license` fields, i.e. no divergent third-party licence applies to this particular skill (the repository does warn that other skills wrapping third-party models or data may declare stricter terms). No slug collision with any existing entry in this registry.

Details

Licence

MIT

Version

0.1.0

Category

Variant interpretation

Homepage

https://github.com/ClawBio/ClawBio/tree/main/skills/pharmgx-reporter

Repository

https://github.com/ClawBio/ClawBio

Maintainers

Susheel Varma (@susheel, GA4GH AI Workstream / Sage Bionetworks)

Keywords

pharmacogenomicscpicclawbio23andmedrug-gene-interaction

Safety classification

No safety classification has been submitted for this entry.

Skill

Human oversight

required

Provenance logging

Yes

Evaluation criteria

https://github.com/ClawBio/ClawBio/tree/main/skills/pharmgx-reporter/evals

Source

https://github.com/ClawBio/ClawBio.git (skills/pharmgx-reporter)

Inputs

• genotype_file (file) — A 23andMe or AncestryDNA raw genotype export (.txt or .txt.gz), GRCh37 or GRCh38.
• drug (string) — Optional single-drug mode: restrict the report to one medication.

Outputs

• pharmacogenomic_report (object) — Per-gene star-allele/diplotype calls, metaboliser phenotype, and CPIC-guideline drug recommendations across up to 51 medications and 12 genes, each traced to a published star-allele-to-drug mapping.

Provenance

Created

2026-09-08T00:00:00.000Z

Updated

2026-09-08T00:00:00.000Z

Last verified

2026-09-08T00:00:00.000Z