Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
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@vinicius-henrique-da-silva-6713
Last seen 21 months ago
Brazil

There is a function to obtain a data-frame containing the SNP tag and the correspondent Minimum allele frequency (MAF) from Genomic Data Structure (GDS) file?

I tried to find a function in SNPRelate and GWASTools packages, but I did not find what I was looking for. I will be grateful for any light here.


 

snprelate GWASTools • 1.0k views
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@james-w-macdonald-5106
Last seen 5 hours ago
United States

Did you look at ?snpgdsSNPRateFreq in the SNPRelate package?

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@adrienne-stilp-6412
Last seen 2.3 years ago
United States

You can use the alleleFrequency function in GWASTools for array data or the alleleFrequency function in SeqVarTools for sequencing data.

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