qpAdm thread

in which way is it better than g25 ?

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Originally Posted by Hamilcar

in which way is it better than g25 ?

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G25 it’s good but it’s an amatour tool. qpAdm it’s an accademic tool and more reliable.

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Originally Posted by andre

Could anyone who knows to use qpAdm test some balkanic populations? (bulgarians,romanians,serbians)

I'm very interest in how extra near eastern admix they get.

The model which i think it will works good is Barcin_N, WHG, some EBA steppe source (Yamnaya Samara i thing it's good) and Iran_N or CHG for show the extra Near eastern admix.

I don't think it would be necessary due to the low percent. but in case it's ok some Mongolia_N or Devil_Cave_N for extra North/East asian admix.

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There aren't enough academic samples from Romania anyway. Behar ones are from Arges county and Reich's are a mix of Gorj and Alba. That's why K13 is king for now.

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Originally Posted by Ion Basescul

There aren't enough academic samples from Romania anyway. Behar ones are from Arges county and Reich's are a mix of Gorj and Alba. That's why K13 is king for now.

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That's the good thing about qpAdm is that you can work with single samples unlike the Admixture program where you need multiple references for each population when you are creating it.

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Originally Posted by Ion Basescul

There aren't enough academic samples from Romania anyway. Behar ones are from Arges county and Reich's are a mix of Gorj and Alba. That's why K13 is king for now.

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That's the good thing about qpAdm is that you can work with single samples unlike the Admixture program where you need multiple references for each population when you are creating it.

New version is quite sensitive for no calls / missing alleles. Good news is low run time that makes possible to run speculative analyses.

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Originally Posted by Zoro

That's the good thing about qpAdm is that you can work with single samples unlike the Admixture program where you need multiple references for each population when you are creating it.

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I still wish someone would make one big set of files (bim/bed/fam) or whatever plink format is merging all known European samples or at least into West Europe and East Europe sets or whatnot because honestly the thing I hate most about using this tool is merging sets because some sets are an eclectic mix but have some samples you need etc... I'm not in the mood to hack a set of shell scripts or perl scripts do to this kind of sh*t and it would save duplication of effor for people if someone could host it on server. Even if one does not make on big set of European files just having non-eclectic strictly European sets would be helpful uploaded to a server.

So, someone will run a model? :)

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Originally Posted by andre

Could anyone who knows to use qpAdm test some balkanic populations? (bulgarians,romanians,serbians)

I'm very interest in how extra near eastern admix they get.

The model which i think it will works good is Barcin_N, WHG, some EBA steppe source (Yamnaya Samara i thing it's good) and Iran_N or CHG for show the extra Near eastern admix.

I don't think it would be necessary due to the low percent. but in case it's ok some Mongolia_N or Devil_Cave_N for extra North/East asian admix.

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Originally Posted by andre

So, someone will run a model? :)

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Bulgarian
Yamnaya_Samara 0.306 ± 0.0352
Anatolia_N 0.454 ± 0.0303
WHG 0.0796 ± 0.0140
Iran_N 0.161 ± 0.0387
p-value 0.559

Romanian
Yamnaya_Samara 0.341 ± 0.0373
Anatolia_N 0.430 ± 0.0315
WHG 0.0795 ± 0.0155
Iran_N 0.149 ± 0.0426
p-value 0.0467

How much East Eurasian are Russians according to that method? Use Devil's Gate Cave for reference.