Annotate Variants with Pharmacogenomic Data
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7.5 years ago

I have developed a pipeline for variant calling from exome sequence data, and I currently use ANNOVAR to annotate the obtained variants. But I would like to extend my analysis further with pharmacogenomic data as well. PharmGKB is a good source but it does not have any annotation facilities. Anybody know a good tool to do this or any alternative approach is highly appreciated. :)

Thanks in advance.

pharmacogenomics ngs Exome sequencing • 2.0k views
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7.5 years ago
Pavel Senin ★ 1.9k

There is KEGG Medicus which has a set of genomic markers and drugs/interactions data. Their API is quite user-friendly.

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Thanks I'll look at it

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