In article <352C9492.182B at liverpool.ac.uk>, <hnewbery at liverpool.ac.uk> wrote:
> ... I am attempting to ascertain whether the two
>polymorphisms are in linkage disequilibrium, based on the
>genotype frequencies in our study population.
...
>I have thus been trying to use the iterative method of
>Hill to estimate P11, but it has not given me sensible answers.
It should.
>My query (rather long-winded, apologies)is thus whether
>there are any programmes available (preferably, though
>not necessarily) over the internet which will calculate the
>degree of linkage disequilibrium between two polymorphisms for
>me given the genotypes which we have encountered.
There are. Try the web site http://wbar.uta.edu for a list of
available population genetics software. Try GDA. Also look into
some others not listed there:
POPGEN: http://www.ualberta.ca/~fyeh/index.htm
POPGENE: http://www.ualberta.ca/~fyeh/index.htm
GENEPOP: http://anthropologie.unige.ch/arlequin/
and GENETIX: http://www.univ-montp2.fr/genome-pop/intro.htm
I have drawn these from a nice web page by Rita Castilho at:
http://w3.ualg.pt/~rcastil/links.htm
--
Joe Felsenstein joe at genetics.washington.edu
Dept. of Genetics, Univ. of Washington, Box 357360, Seattle, WA 98195-7360 USA
