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.


 

Did you look at ?snpgdsSNPRateFreq in the SNPRelate package?

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