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Analyzing simulated data

Create a working subdirectory (call it mletest) and copy the simulated data sets into it. The simulated datasets called and mletest.cro come from zeng@94. They are in the example subdirectory of the distributions. These are properly formatted, and can be analyzed with Qstats, LRmapqtl, etc. Do the following:
  1. Proceed with the analysis programs as in the previous example. Be sure to set the proper filename stem (mletest) and working subdirectory. Run Qstats, LRmapqtl, SRmapqtl and Zmapqtl. Look at the output after each run.
  2. Start up Preplot. Don't change any parameters: Go ahead with the program.
  3. View the results using Gnuplot.
  4. Start up Eqtl. Go ahead with the analysis. Look at the output (mletest.eqt).

Assuming that the QTLCartUnix.tar.gz file was uncompressed and untarred in your home directory, the UNIX equivalents of the above are

% cd qwork
% mkdir mletest
% cd mletest
% cp ~/QTLCartUnix/example/mletest.* .
% Qstats -A -X mletest
% LRmapqtl -A
% SRmapqtl -A 
% Zmapqtl -A 
% Zmapqtl -A -M 6
% Preplot -A
% gnuplot mletest.plt
% Eqtl -A

Christopher Basten 2002-03-27