SNP6 ID mapping with oligo package
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8.5 years ago
imagineyd ▴ 70

Hello :)

I want to map GWAS SNPs (from here) to SNP IDs using R package (with pd.genomewidesnp.6).

From R package with this function (dbGetQuery), I could get all SNPs IDs information (906600 SNPs). But I found something strange. Because hundreds SNPs from GWAS couldn't map to SNP IDs (6.0 Affymetrix arrays IDs, e.g., SNP_A-8682034).

For example, I couldn't find these SNPs with R package: rs7023329 or rs7412746.

Somebody can help me?

Many thanks :)

SNP6 genomewidesnp.6 oligo-package • 1.7k views
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