Dilawer's SAPDA vs Davidski's calculators

[Zoro]

First learn to read English and reading what people actually write and stop wasting our time.

Also start comprehending that you CANNOT expect a calculator made for ANATOMICALLY MODERN HUMANS, especially one made for post Ice Age europeans and thus non African population, to be able to model a population whose genome can't be even fully reconstructed through their remain in modern humans.

Let's make another example, let's say you have an Amerindian, an Australian Aboriginal, a Khoisan person, a Yoruba person and each of them is 5% Kurdish genetically and then you have an Azerbaijani person, do you seriously expect to be able to model a fully Kurdish person through a mix of all those populations and NOT through a pure Azerbaijani? Seriously?

Dude if you’re goina give an analogy at least give one which makes sense. How the freak is your analogy equivalent.?

You’re too fixated on the fact that there was only 5 percent geneflow from Eurasians to Altai Neander and VISA VERSA. Guess what it doesn’t make a difference to Admixture program and here’s why:

Let’s say that you have a k2 calculator. One component is African the other Eurasian (doesn’t matter whether E. Or W. Eurasian). If the calculator is properly designed to disregard ancestral alleles shared by Africans, Eurasians, and Neander and only consider DERIVED alleles, the calculator should output 100% Eurasian for the Neander sample since the only options are Eurasian and African. Therefore that 5% is 100% Eurasian

There’s no way you’re goina win this since I got help from Dilawer on this answer and he actually makes software and freakin genotypes DNA sequences unlike the blogger we are talking about

[SharpFork]

Dude if you’re goina give an analogy at least give one which makes sense. How the freak is your analogy equivalent.?

You’re too fixated on the fact that there was only 5 percent geneflow from Eurasians to Altai Neander and VISA VERSA. Guess what it doesn’t make a difference to Admixture program and here’s why:

Let’s say that you have a k2 calculator. One component is African the other Eurasian (doesn’t matter whether E. Or W. Eurasian). If the calculator is properly designed to disregard ancestral alleles shared by Africans, Eurasians, and Neander and only consider DERIVED alleles, the calculator should output 100% Eurasian for the Neander sample since the only options are Eurasian and African. Therefore that 5% is 100% Eurasian

There’s no way you’re goina win this since I got help from Dilawer on this answer and he actually makes software and freakin genotypes DNA sequences unlike the blogger we are talking about

What if the remaining 95% of Neanderthal DNA is overall more similar to the one those peripherical African population do? Why don't you consider that? Not all calculators measure the same things, how would you properly measure descend through a ancestry based calculator anyway? Even your SAPDA calculator says Neanderthals are 30% African...

[Zoro]

What if the remaining 95% of Neanderthal DNA is overall more similar to the one those peripherical African population do? Why don't you consider that? Not all calculators measure the same things, how would you properly measure descend through a ancestry based calculator anyway? Even your SAPDA calculator says Neanderthals are 30% African...

Carefully read what I said. There are a few experienced calculator makers who can filter out ANCESTRAL alleles when making the calculator . Therefore there shouldn’t be any allele sharing between Neander and Africans when done properly

[SharpFork]

Carefully read what I said. There are a few experienced calculator makers who can filter out ANCESTRAL alleles when making the calculator . Therefore there shouldn’t be any allele sharing between Neander and Africans when done properly

And why should a calculator made for post-ice age Eurasians do any of that? Answer the question.

[Zoro]

And why should a calculator made for post-ice age Eurasians do any of that? Answer the question.

You’ll find clues in Dilawer’s statement

Eurasians, whether Europeans or Asians, are genetically very similar to each other, with genetic similarities far outweighing any differences they have. Most Eurasians have descended from a few thousand individuals who roamed Eurasia during the Upper Paleolithic and thus share a huge amount of DNA. Thus an admixture inference program needs to determine which mutations are shared due to distant common origins and which ones due to more recent introgression.

It is for this reason that some bioinformatic software such as qpDstat, qp3pop, and qpAdm, which are included in the ADMIXTOOLS software suite available at Reich Lab, use outgroups to filter out older common ancestral alleles.

An extreme example of how ancestral alleles and SNP ascertainment bias distort admixture calculations using the program ADMIXTURE is Neanderthal. When the Neanderthal is processed with an ADMIXTURE based calculator, regardless of calculator design, the results show it to be around 90% African. Of course we know this inference is incorrect because the Neanderthal lineage diverged from humans over 500,000 years ago, with some hybridization with humans occurring around 50,000 years ago in Eurasia and NOT in Africa.

That’s the reason serious researchers use qpAdm and not Admixture or G25 with nMonte. SAPDA uses the same principle. For example, steppe populations are high in EHG. Since Europeans have alot of ancestry from Corded Ware and the like Admixture or G25 will sometimes show Europeans closer to Iron Age steppe nomads than some west Asians because of all the EHG. But if you were to use EHG as an outgroup, then you’ll have a better idea which steppe population contributed more to Europeans.