I am running fastStructure 1.0 isntalled from bioconda. The software is being run with the --full option to save the file with the variances of the Q matrix (*varQ).
Inspecting the file. however, I have noted that the results in there do not make sense. This is one example of row for a file with K = 11:
0.090920 0.090920 0.090920 0.090920 0.090920 0.090920 0.090920 0.090920 0.090920 0.090920 64250.090802
The 11th field is too high for the variance of a probability. I could assume here that 6425 as been wrongfully appended to 0.090802. But this does not solve all issues.
There is also the problem about how unlikely is that all variances are the same across clusters. The situation shown above repeats in several situations.
Other rows show an even more complicated picture, e.g.:
32748.272252 0.090920 16221.312401 0.090920 0.090920 0.090920 0.090920 0.090920 15280.687988 0.090920 0.090920
Here, the issue of concateanting numbers no longer applies. It is impossible for me to deduce what the real numbers could be.
Finally, I have also noted that all rows sum to approximately the same value of "variance", which is suspicious.
I am running fastStructure 1.0 isntalled from bioconda. The software is being run with the
--fulloption to save the file with the variances of the Q matrix (*varQ).Inspecting the file. however, I have noted that the results in there do not make sense. This is one example of row for a file with K = 11:
The 11th field is too high for the variance of a probability. I could assume here that
6425as been wrongfully appended to0.090802. But this does not solve all issues.There is also the problem about how unlikely is that all variances are the same across clusters. The situation shown above repeats in several situations.
Other rows show an even more complicated picture, e.g.:
Here, the issue of concateanting numbers no longer applies. It is impossible for me to deduce what the real numbers could be.
Finally, I have also noted that all rows sum to approximately the same value of "variance", which is suspicious.