Filter duplicate ID from PLINK file
Hi All,
I am new to SNP-chip data analysis.
I have been exploring some SNP-chip data using plink 1.9, while checking the Relatedness using KING, I am getting an error of duplicate ID.
I was wondering if there is any method I can remove the duplicate individuals and retain only one copy of the same at every first step (before QC).
Thank you,
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chrchang523
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Sumeet •
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Sumeet •
1 answer
You first need to edit your .fam file to assign unique IDs. After you've done that, you can follow up with e.g. plink's --extract or --exclude flag to select which samples you want to keep.
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