Rare variant testing

[meghatron]

Hi!

I just wanted to confirm that the vt-test is not available. I tried with both plink and plink2, however, when I use --vt-test, the I get an error that this command is not recognized.

https://zzz.bwh.harvard.edu/plink/rvtest.shtml

Is there another way to do variable threshold testing in plink?

Thanks!

[Chris Chang]

You are correct, this is not currently implemented in plink 1.9 and 2.0.

I recommend looking at regenie (
https://rgcgithub.github.io/regenie/ ) for rare-variant association testing today.

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