Hi, I have two data sets from the illumina omniexpress snp array platform. The first data set was mapped using the GRCh37 build and the second one was more recently read using the GRCh38 build. Not surprisingly when I've tried to merge the files in PLINK for a larger analysis it comes up with the warning snp rs... is in a different genetic position. Is there any way to update the build of the first data set? Or suggestions for how best to proceed, I haven't done much genetic analysis before so any help would be welcome :)
Best,
Mari
Hi,
Between GRCh37 and GRCh38 some of the genome coordinates and genome annotation should be the same. For those that differ, I recommend the website:
http://genome.ucsc.edu/cgi-bin/hgLiftOver
Unfortunately, I'm afraid that with a large amount of data, the conversion may be a time-consuming process, but it's always a solution.
Hope this helps! Feel free to ask if you have questions about how to use the program to convert.
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