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##

BOOTSTRAPS, JACKKNIVES AND PERMUTATIONS

If **Zmapqtl**
was used to do a bootstrap experiment or a permutation test, then there will
be interim results files. With the default filename stem and model 3, there
will be files *qtlcart.z3c* and *qtlcart.z3e* if a permutation test was done, and
*qtlcart.z3a* if a bootstrap was done.
Using the work code *PBZM* will direct **Eqtl** to
detect these files and processes their results. It will open
a qtlcart.z3e file and determine an experimentwise threshold based on the
size specified with the **-a** option.

If the *qtlcart.z3a* file exists, then **Eqtl**
opens it and computes the means and standard deviations, at each test site,
of the likelihood ratio test statistic, additive effect and dominance effect.
The results are printed to *qtlcart.z3b*.

The jackknife procedure produces a *qtlcart.z3i* file. Adding a *J* to
the work code directs **Eqtl** to
computes the means and standard deviations
of the likelihood ratio test statistic, additive effect and dominance effect
at each test site.
The results are printed to *qtlcart.z3j*.

** Next:** REFERENCES
** Up:** EQTL
** Previous:** EXAMPLES
** Contents**
** Index**
Christopher Basten
2002-03-27