Hello, I am analyzing some microsatellite population data. I have been
using GENEPOP to calculate Hardy-Weinberg equilibriums. At one of my
loci I had a few populations show up out of HWE with a p value of 0.000
according to GENEPOP. I ran CHIHW, another program, to compare the
results with a different method. These same populations were calculated
as being in HWE with probabilities ranging from 1.0 to 0.96. Next I tried
CHIHW on a locus with a null allele. The population I tested had the null
at a frequency of over 50%, 30 observed heterozygotes and 130 expected
heterozygotes and was obviously out of HWE with a p value of 0.000 using
GENEPOP. CHIHW said the populations was in HWE with a probability of 0.96
yet the Selander D value (probability of the observed hz = expected hz)
was 0. Has anyone had conflicting results when comparing GENEPOP to CHIHW.
Has anyone had populations out of equilibrium test out within equilibrium
with CHIHW? I would appreciate any light people can shed on these puzzling
results.
Thank you,
Maureen Small
