Hello Sandeep,
Thank you for your question. The liftOver tool will convert your coordinates from one assembly to another. In order to do this, your data should be in BED format, see the following page for more information:
http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#Convert. We do not have a utility to convert PLINK to BED or vice versa. You might perform a web search to find such a utility. Otherwise, you
would need to write a script to perform the conversion yourself.
If you have any further questions, please reply to
gen...@soe.ucsc.edu. All messages sent to that address are
archived on a publicly-accessible forum. If your question includes
sensitive data, you may send it instead to
genom...@soe.ucsc.edu.
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Luvina Guruvadoo
UCSC Genome Bioinformatics Group