combining gds files into one gds file

Question

[gulcek]

I converted 23andme raw snp data to vcf format for 750 individuals and all of them have same rsnpid's. Then I convert them to gds format using convertVcfGds(vcf, gdsfile) function in SNPRelate package. I need to merge all individual's gds files into one gds file and use it for hieararchical clustering. However, when it merges, after 17th individual I get "there is no common snp" error. I also try to merge the 1st,2nd,3rd individuals and number of common snps decrease after every individual.

What am I doing wrong?

Thank you so much

[kumar.vinod81]

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