Convert plink bfiles from GRCh37 to GRCh38 build

[redha...@gmail.com]

Hi,

I am asking whether there is a way to convert bim, bed fam files from GRCh37 to GRCh38 build using plink.

Thank you.

Redha

[Christopher Chang]

I intend to provide a cleaner built-in solution at some point, but for now you need to follow a procedure similar to the one described at https://genome.sph.umich.edu/wiki/LiftOver .

[Azza Ahmed]

Perhaps you'd like to give this pipeline[1] a look: https://github.com/GraceSheng/triple-liftOver

It caters to a few more corner cases, and usage is straightforward

[1] Sheng, Xin, et al. "Inverted genomic regions between reference genome builds in humans impact imputation accuracy and decrease the power of association testing." Human Genetics and Genomics Advances 4.1 (2023): 100159.