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Question: .pop file in ADMIXTURE
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gravatar for dirranrak
5.4 years ago by
dirranrak • 20
United States
dirranrak • 20 wrote:

Hi all,

I want to use the supervised analysis with ADMIXTURE but I don't know how to create or to find or to get the file .pop that is needed to run the analysis. And then what should be the supposed steps following that if I want to know wich population(s) is the ancesty(ies) of the populations that I am studying? Could anyone help me?

Thank you very much 
snp gene genome • 2.2k views
ADD COMMENT • link •
modified 5.4 years ago by Gabriel R. • 2.8k • written 5.4 years ago by dirranrak • 20

Hello. Did you manage how to generate the .pop files?

ADD REPLY • link written 3.6 years ago by c_barbarosie • 0
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gravatar for Gabriel R.
5.4 years ago by
Gabriel R. • 2.8k
Danmarks Tekniske Universitet
Gabriel R. • 2.8k wrote:

Hey!

Check the manual page 9, it contains a minimal example of what a pop file should look like. You have to generate it using your foreknowledge of the origin of the individuals.

Once you have run admixture, there is a file containing a 2D matrix with the fractions for each component for each individual.

Hope this helps.
ADD COMMENT • link modified 15 months ago by Ram ♦ 32k • written 5.4 years ago by Gabriel R. • 2.8k

Hi Gabriel,

Thank you for the answer. I red this manual page 9 but the .pop file doesn't seem like a simple .txt file? the .pop file is like another file having as extension .pop

ADD REPLY • link written 5.4 years ago by dirranrak • 20
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