Hmmmm,
I have the following simple linkage problem:
We are a studying a disease which is perfectly linked to two markers,
which are approximately 1 cM apart. We have a small consanguineous family,
which gives us a lod (theta=0) of 3.09 for one marker and 2.2 for the
other.
The problem: when I run ilink and then lrp, I get a "generalized lod
score" of 5.06, for the three possible locus orders.
What is a generalized lod score? How is it calculated? Why is it higher
than my better marker?
thanks in advance,
Mike
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Michael Morris PhD
Division of Medical Genetics tel (Switzerland) (22) 702.56.94
CMU, University of Geneva fax (Switzerland) (22) 702.57.06
Geneva, Switzerland email mike at medsun.unige.ch
