South Slav members PCA

[Jana]

[rothaer]

Strange that Slovenes are fully within the range of Croats. Representative or a result of low testee numbers?

[Jana]

Strange that Slovenes are fully within the range of Croats. Representative or a result of low testee numbers?

Not that representative, only 3 samples and 2 of them are half Slovenes (half other south Slavs) and third one is 3/4 Slovenian.

[FinalFlash]

Bosnians overlapping with both Serbs and Croatians makes perfect sense. The Slovenian cluster is a bit strange though.

[Jana]

I find it unexpected than those select few Montenegrin members we have plot more eastern than Macedonians do.

[TheMaestro]

I find it unexpected than those select few Montenegrin members we have plot more eastern than Macedonians do.

Where would I plot? You know by any chance.

[Jana]

Where would I plot? You know by any chance.

Somewhere in Serb cluster I'm pretty sure. If Romanians were included maybe there even better.

[Peterski]

Can you add also Hungarian members to this PCA ???

I suspect they will overlap with Slovenes and Croats.

[Komintasavalta]

Here's a PCA made the regular way where I didn't account for FST. The colored groups are based on cutting a hierarchical clustering tree at the height where it has 16 subtrees. Each user is connected with a line to their two closest neighbors:



When I multiplied the matrix of admixture weights with an MDS matrix of the FST matrix, then Morti, a part-Tatar user, and Milenko_uncle_in_law plotted far from other samples on PC2. Therefore I also made a second PCA with the three outliers removed:




I used Mantel's test to show that when the matrix of admixture weights is multiplied by an MDS matrix of the FST matrix, it greatly improves correlation with f2 distance: https://anthrogenica.com/showthread....etic-distances. However it may not be very useful when you compare samples from related European populations, because it also amplifies differences in noise-level admixture of non-European components. (For example in the two plots above that were multiplied by MDS of FST, vlrs-2_cousin(Bulgarian) is a lone outlier in their own cluster, because they have 1.6% SSA and 1.9% Amerindian.)

Here's a heatmap of all the users. The branches are ordered based on the combined percentage of Baltic and North_Atlantic:

[Jana]

Thank you Komintasavalta, amazing work.