**10**wrote:

Hi all, I advanced using ADMIXTURE after using Plink and I have got K=5, so I ploted the data with R using col=5. I get the barplot with each bar representing an individual but how can I recognize the color label such as the red color for example and/or which population? because the *.5.Q file just has row or column for the proportions and each individual. Thank you.

**0**• written 2.6 years ago by dirranrak •

**10**

The key to generating the canonical admixture plots in R is to used a stacked barplot with the coancestry coefficients. Is this what you're doing? It's not clear.

2.4kThis is the plot from myfile.5.Q using R. I try to find what does mean each color (ancestry population probably? and if it is the case, which population?).

Here is the way I did it:

> tbl=read.table("trialmergedexcludedrs3926405,rs365066AfricaKhoisanexcludedsnpwith0phenotypegeno0.05hwe0.001Batwa_Kiga.913651pos.230samples.PNAS2014_trial1_flip.5.Q")

> barplot(t(as.matrix(tbl)), col=rainbow(5),

+ xlab="Individual", ylab="Ancestry", border=NA)

10Hi, so the thing that I try to do with plink, admixture, and R is to find the ancestry(ies) of some populations in my genomic data.

I just got the proportions for each individual with ADMIXTURE and I ploted these files in R using K=2 to K=5. After that, the plot that I got are with different colors depending on K value, so the first one is with 2 colors and the last one is with 5 colors. the question is now, how can I Know the meaning of each color in each individual proportion?

Thank you so much.

10Hello, did you find something?

Thank you.

0