Variant_function file to .SetID file?

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Kévin Vervier

Hi,

From the documentation(https://rdrr.io/cran/SKAT/man/Generate_SSD_SetID.html), it looks like the setID file must be in the following format:

"name of the SNP set ID file that defines SNP sets. The first column must be Set ID, and the second column must be SNP ID. There should be no header!! "

HTH,

Kevin

İnci Şevval Aksoylu

Hi Kévin Vervier ,

Thanks for your response. My problem is to generate the .SetID file out of the .variant_function or .vcf file. Do you know any function to generate it?

Thanks!

Solved.

http://faculty.washington.edu/tathornt/sisg/Input%20Files%20and%20Code/Lib.R