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Liftover variants/vcf called on NCBI reference genome

Could you use the hg19 --> hg38 chain from here? As I understand it, the main difference between GrCH37 and hg19 are the format the chromosomes are written (whether there is a "chr" ...
Sarah's user avatar
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1 vote

Liftover variants/vcf called on NCBI reference genome

Liftover is hard. While many variants can be lifted over relatively easily, some cannot. First, some variants are not even variants in the other genome (the other genome has the variant allele as the ...
terdon's user avatar
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How to perform liftover from 38 to 37 in R?

Thanks for your post, I tried your code in R with my GwasSumstats with some adjustments from https://bioconductor.org/packages/release/workflows/vignettes/liftOver/inst/doc/liftov.html and it works. ...
Eleanor's user avatar
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