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Post by rdong23 on Mar 31, 2022 7:26:20 GMT
Hi,
I was conducting the conditional analysis for GWAS summary statistic based on several SNPs I selected and --cojo-cond, but got the error
Error: there is a collinearity problem of the given list of SNPs. You can try the option --cojo-slct to remove one of each pair of highly correlated SNPs. An error occurs, please check the options or data
I then added the --cojo-slct but found that the --cojo-slct selected the independent SNPs from the GWAS summary stats automatically and performed the conditional analysis based on these SNPs. It ignored the SNPs I provided at all.
So I think I can't use both --cojo-slct and --cojo-cond at the same time.
Does anyone know how to solve this problem?
Thank you.
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