PGX

Use PGX commands to query pharmacogenomic guidelines and annotations from CPIC and PharmGKB.

Search PGX

By gene:

biomcp search pgx -g CYP2D6

By drug:

biomcp search pgx -d codeine

With evidence and CPIC level filters:

biomcp search pgx -g CYP2D6 --cpic-level A --evidence --limit 10

Search filters

Flag	Description
-g/--gene	Gene symbol
-d/--drug	Drug name
--cpic-level	CPIC level (A, B, C, D)
--pgx-testing	Filter by PGx testing recommendation
--evidence	Include evidence summaries
-l/--limit	Max results
--offset	Pagination offset

Get PGX sections

Retrieve detailed PGX data for a gene-drug pair by section.

Dosing recommendations:

biomcp get pgx CYP2D6 recommendations

Allele frequency data:

biomcp get pgx CYP2D6 frequencies

Clinical guidelines:

biomcp get pgx CYP2D6 guidelines

PharmGKB annotations:

biomcp get pgx CYP2D6 annotations

All sections at once:

biomcp get pgx CYP2D6 all

Available sections

Section	Content
recommendations	CPIC dosing recommendations
frequencies	Allele frequency data
guidelines	Published clinical guidelines
annotations	PharmGKB clinical annotations
all	All sections combined

JSON mode

biomcp --json search pgx -g CYP2D6
biomcp --json get pgx CYP2D6 recommendations

Related guides

• Gene
• Drug
• Variant