I want to determine the number of haplotype clusters there are in my dataset using fastphase. The results are meant to produce a _kselect file, but this never happens and fastphase always uses a K15 for the model.
This is what I have been running- I wanted to test the number of clusters from 5 to 25 going up intervals of 4
./fastPHASE -T10 -ochr26 -KL5 -KU25 -KI5 -KS5 -KM500 -KP.1 plink.chr-26.recode.phase.inp
Am I missing something?