Question: What is the meaning of REF, ALT, A1 on the logistic analysis (--glm) using Plink2?
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sjunlee89 • 0 wrote:
I ran an logistic analysis (--glm) using Plink2 and got some results.
Some SNPs have the same allele between REF and ALT (REF=ALT), others have the same allele between REF and A1 (REF=A1).
As I know, A1 is the minor allele, however, I'm not sure what the REF, ALT, and A1 is exactly.
Please let me know.
Thanks advanced.
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modified 2.0 years ago
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Santosh Anand ♦ 5.2k
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2.0 years ago by
sjunlee89 • 0
