Combining data sets for PCA
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3 months ago
raalsuwaidi ▴ 30

Hello

I have a local genome panel VCF file. I can use PLINK to transform it to the appropriate format and apply a PCA analysis.

But I want to perform the analysis comparatively between the local data set and the 1000 genome data. This means that I will combine the files and run the PCA command on the combined version.

Now will the plot show me which cluster belongs to which set? How can I do that?

Plink 1000genome PCA genotype • 147 views
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