How to get Bar Plot from results generated by STRUCTURE @ BioHPC

[Letícia Jungmann]

Dear all,

does anybody know how to get the Bar Plot using results generated by
an analysis performed on the STRUCTURE @ BioHPC server at Cornell?

Regards,

Letícia

[James2]

Dear Leticia,
I think the best way is to use CLUMPP to get "a mean" answer over the
different run for a same K value and then to use DISTRUCT to get the
final bar plot. However if you want to have a look for each run
separately, you can probably use the "load structure results" in the
"file submenu" of STRUCTURE (if the output of BioHPC looks like the
outputs of STRUCTURE). I hope this will help.
Regards,
James

[Letícia Jungmann]

Hi, James!
thanks for your help.
I loaded de ..._f file in Structure and it worked.

I am new in Clumpp, could you help a little bit more?

I am using indfiles, since I am working with individuals.
In Clumpp manual there is an example of indfiles, as follows:

1 indnr (x) popnr : 0.315 0.002 0.683
2 indnr (x) popnr : 0.475 0.014 0.511
3 indnr (x) popnr : 0.090 0.005 0.905
...
...
...
...
...
...
...
...
94 indnr (x) popnr : 0.004 0.003 0.993
95 indnr (x) popnr : 0.004 0.010 0.985
1 indnr (x) popnr : 0.687 0.002 0.310
2 indnr (x) popnr : 0.490 0.011 0.500
3 indnr (x) popnr : 0.898 0.007 0.095
...
...
...
...
...
...
...
...
94 indnr (x) popnr : 0.993 0.004 0.003
95 indnr (x) popnr : 0.987 0.008 0.005

Would you know where are the values of membership coefficients for individual 1 in run 1 (e.g. 0.315 0.002 0.683) found in output from Structure?

Thanks in advance,

Letícia

[James2]

Dear Leticia,
in your "experiment" folder (the folder you defined when you create a
new project with Structure) you will find another folder named
"Results". In this folder, you have differents files named as
follow : "nameoftheparameterset_run_XX_f". Each file correspond to one
run for one K value. Open it with textpad and you will find membership
coefficients!
James

[Letícia Jungmann]

Thank you again James!

Letícia