mtDNA, lactase persistence, and admixr for ADMIXTOOLS

The following are some recent developments and updates:

I. Ancient DNA Dataset version 2

I.1. Accurate mtDNA haplogroups

I was meaning to update the mtDNA part of the Ancient DNA Dataset, and finally found some time to review FTDNA and YFull nomenclature (including hyperlinks), as well as those SNP calls from published samples found in YFull’s MTree. So, if you are interested in studies of mtDNA phylogeography, I think the data is now accurate and much more useful.

Given the number of columns and the size of the files, I have decided to post shorter standard versions, by … Read the rest “mtDNA, lactase persistence, and admixr for ADMIXTOOLS”

Online GIS maps of ancient Y-DNA, mtDNA and ADMIXTURE

The last few weeks have been very exciting in terms the amount, diversity and quality of newly reported ancient samples, which included new genotypes and also Y-DNA and mtDNA haplogroups.

As some of you already know, I had been preparing a tailored GIS map of ancient DNA using QGIS-server on Ubuntu and trying some of the available plugins for the task, and was ready to use my old broken PC as a web server. For that, I needed to prepare different files corresponding to the different conventional divisions of the Prehistory Atlas. The crazy number of recently reported papers … Read the rest “Online GIS maps of ancient Y-DNA, mtDNA and ADMIXTURE”