Model based structure analysis

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8.8 years ago

anikduttapotol ▴ 10

hello,

I am doing a model based population structure analysis following Bayesian method in R. I have SNP data from 100 diploid individual. I am using K=1,2,3,4,5,6 and 7. Now the problem is when I use k values up to 3 I see only one color in the figure generated in R. But when I use values like 4,5,6 and 7 I see minor color change in the tip of 5-6 vertical line. I thought that there is only one population as majority are showing only one color, but then I checked the lnProb values for each k and it was showing that the highest lnProb value is for k=7. So now, what explanation can I give? please share your thoughts and suggest me.

Thank you. I have attached two figures please see it and give me some idea.

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ADD COMMENT • link updated 8.7 years ago by Biostar 20 • written 8.8 years ago by anikduttapotol ▴ 10

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Could you please include some details about the programs or scripts you were using for generating those plots? Thx

ADD REPLY • link 8.7 years ago by wjidea ▴ 50

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