Friday, February 15, 2013

Gradient Maps for African ADMIXTURE components

Here below are gradient maps for my last African ADMIXTURE run, Africa_V2b, courtesy of a demo download of Mapviewer7 . The Kriging method was used for Gridding and 'Grid Z limits' mode was used for color mapping.

Sampled Population's Index

Sampled Population's Location

PCA for the FST distances
generated by ADMIXTURE  

West-Africa Cluster Freq.

Nilo-Saharan Cluster Freq.

East-Africa-2 Cluster Freq.

North-Africa Cluster Freq.

Khoi-San Cluster Freq.

Omotic Cluster Freq.

Mbuti-Pygmy Cluster Freq.

Biaka-Pygmy Cluster Freq.

Hadza Cluster Freq.

East-Africa-1 Cluster Freq.
Isometric view of the MDS plot
 for all Populations sampled


UPDATE (02/18/2013) : Below are gradient maps for the first African ADMIXTURE run, Africa_V1, courtesy of a demo download of Mapviewer7 . The same options as above were used both for gridding and color mapping.




Sampled Population's Index

Sampled Population's Location

PCA for the FST distances 
generated by ADMIXTURE  

Central-West-Africa Cluster Freq.

North-Africa Cluster Freq.

Eastern-Bantu  Cluster Freq.

West-Africa Cluster Freq.

East-Africa-2 Cluster Freq.

Khoi-San Cluster Freq.

Mbuti-Pygmy Cluster Freq.

Biaka-Pygmy Cluster Freq.

Hadza Cluster Freq.

East-Africa-1 Cluster Freq.

Isometric view of the MDS plot
 for all Populations sampled

2 comments:

  1. The bimodal Omotic distribution is a bit surprising. Is there any logical reason why that should be present?

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    Replies
    1. It is because of the high presence of the omotic cluster found in the Sandawe of Tanzania, possibly an ancient rift valley presence that got disrupted by incoming farmers from the west.

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