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Pharmacotyper

3 bytes added, 15:24, 13 July 2018

→‎Pharmacotyper - getting relevant PGx variants from a patient VCF

==Pharmacotyper - getting relevant PGx variants from a patient VCF==

The Pharmacotyper is a Python script that extracts relevant variants from a VCF and returns

;allele matching

: Match variants to PGx alleles by custom method. Return list of possible PGx alleles in the nomenclature of the OWL ontology of [[Pharmacoracle]]

;haplotype queries

: Return variants in terms of queries to [[Pharmacoracle]] ~~queries based on the PGx alleles~~

We have coined the verb ''to pharmacotype'' for the action of the Pharmacotyper.

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