Genepop is a population genetics software package, which has options for the following analysis: Hardy Weinberg equilibrium, Linkage Disequilibrium, Population Differentiation, Effective number of migrants, Fst or other correlations.
Genepop can be used either as a DOS-version or a Web-version. The web-version is easy to use: after choosing an option for the analysis (see above) the data is typed or pasted into the text window provided and the results are obtained either by email or by viewing the output via the Web.
The input files have a special format, see example here.
The output content depends on the analysis option you have chosen. As an example of the output, results from the LD-option is shown here
DOS-version: Michel Raymond, Francois Rousset
Web-version: Terence Chang, Robert Hendrie, Jeremy Abercrombie-Higgins, Rod Maddocks, Eleanor Morgan, Ba Tu Truong
Raymond M, Rousset F. GENEPOP (version 1.2): Population genetics software for exact tests and ecumenicism. J. Heredity 86:248-249, 1995.