Genomic Inflation Factor Lambda Too Low
I have a bed file with genotype data for around 450000 SNPs and 700 samples. I am performing a logistic regression analysis in PLINK with the option "adjust" to obtain the genomic inflation factor. It gives me a lambda of 1. However I expected a higher value since I have controls from different Spain areas. In fact, if I perform a simple association analysis (--assoc), I obtain a lambda of 1.10. Has anybody an idea of what can cause this difference between the two analysis?
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Michael Dondrup
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mangeles.suarez •
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mangeles.suarez •
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Inflation factor lambda is too high in GWAS. How to correct this issue (decrease the lambda)? is sort of the exact opposite of this question.
Is it not just a difference between
--logisticand--assocfit?