GxE intreactions in PLINK
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Entering edit mode
2.0 years ago

Hi,

I'm trying to do GxE interactions in PLINK, and mycov.dat file is formatted like this

FID   IID          Age    BMI
1     subject 1    66     23.10
2     subject 2    76     25.30
3     subjet 3     32     24.90
5     subject 4    70     24.00

I had some suggestions to do cut off of BMI and code like 0/1 or 1/2 . I have tried both ways i.e, with binary and with continuous. but PLINK keeps giving me the same error:

Can only use --gxe option with continuous phenotypes

Can anyone help me with this? or if there is any other function in PLINK that I can use to do SNP-trait association interactions?

Thanks

software error plink GxE • 567 views
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Entering edit mode

Please use the formatting bar (especially the code option) to present your post better. You can use backticks for inline code (`text` becomes text), or select a chunk of text and use the highlighted button to format it as a code block. I've done it for you this time.
code_formatting

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0
Entering edit mode
2.0 years ago

You misunderstood the error message. You changed the covariates between binary and continuous, but PLINK is complaining about the main phenotype.

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