MAF could be the REF clarification

[Alistair Rust]

This will look the same clarification that I asked about via the tensorQTL [https://github.com/broadinstitute/tensorqtl/issues/38]!!
But this time I came via the GTEX pipeline documentation page that mentions FastQTL being used.

To triple check, in FastQTL as well as tensorQTL, if the REF is not the major allele in certain cases, then it is reported as the MAF value.

Thanks (again)

[François Aguet]

Hi, yes, thats correct. The output is exactly the same in FastQTL and tensorQTL.

[Alistair Rust]

I thought that would be the case. Thanks!