Interpret PCA as combinations of SNPs
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7 months ago
Tam • 0

Hi everyone,

I understand that the PCA in SNPRelate summarizes the genetic variance of the population, but I would love to know how one can derive the genetic makeup (SNPs) that correspond with the principal components. I tried reading the code from

https://github.com/zhengxwen/SNPRelate/blob/master/src/genPCA.cpp

but it's not so easy. If there's a source where I can read the mathematics behind this code (how the principal components are computed from the SNPs dataset), I would love to see it as well.

Many thanks.

PCA SNPRelate • 255 views
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The first paper here describes some of the procedure: https://github.com/zhengxwen/SNPRelate#citations There are references there that might also be generally useful.

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