Change into the **mr** subdirectory. Run the following set of commands:

% JZmapqtl -A -V -X mletest -M 9 -I 10 % MultiRegress -A -V % Rqtl -A -V -i mletest.mr -o mletestPhase0.mqt % MImapqtl -A -V -I sMPrTseC -p 1 % MImapqtl -A -V -I sMPrtSeC

As in the previous example, compare the **mletestPhase*.mqt** files
to the
true model in **mletest.qtl**. The first is the
model as estimated from multiple regression of the trait on genotypic expected values
every two centimorgans. The second is a reduced model in which **MImapqtl**
has deleted non-significant QTL. The third (**mletestPhase2.mqt**) contains a model after
**MImapqtl** has searched for more QTL. Is this final model closer to the true model than
the model obtained by *de novo* analysis? How long did this set of commands take?

Christopher Basten 2002-03-27