Magnus Ducatus Lituaniae Project - BGA analysis project for the territories of former Grand Duchy of Lithuania.
Admin: Vadim Verenich
Co-admin: Leon Kull
I see only two Chuvash individuals and no Uzbek individuals on the PCA plot. Were they not included in the PCA analysis, or are they in a part of the PCA plot so remote that you didn't show that part of the PCA plot? Also, is it a PC3/PC4 PCA plot? If yes, where is the PC1/PC2?
@OnurChuvash and Uzbek individuals were intially included into Eigensoft input file. In Eigensoft option, I choosed 3 SDs for outlier removal:any individual with 3 standard deviation (3DS) along one of k top principal components > s would be removed as an outlier. I also plotted PC3 against PC4, because it appeared to be more informative.