Convert variant coordinates from one genome build to the other

Question

[Gene_MMP8]

I have a list of variants (Chromosome/Position/Ref/Alt) based on the GrCh38 build of the human genome. To reproduce the results from a paper, I have to map these coordinates to the GrCh37 build of the human genome. Now I understand that the UCSC LiftOver tool maps the coordinates (Chrosome/Position) of the given set of variants from one build to the other. But how do I map the corresponding Reference/Alternate alleles to the GrCh37 build? Is there any tool that does that?

[Pierre Lindenbaum]

use picard liftovervcf https://www.google.com/search?q=liftovervcf+site%3Abiostars.org

[Gene_MMP8]

Thanks for sharing. Much appreciated. Just to clarify I will get the reference/alternate allele mapping too, right?

[Pierre Lindenbaum]

I will get the reference/alternate allele mapping too, right?

yes