Not a common complaint, I guess. But I cannot understand (or believe)
a result we recently had from LINKAGE 5.1.
We have a consanguineous family, with a monogenic AR disease (locus
1). We have two perfectly linked markers (2 and 3), which complement
each other in terms of informativity. The markers are at most 1% apart
(no rec. in this family).
I ran MLINK, "Lod score table", with the following results:
Locus order Rec fractions Rec varied lod max (always theta=0)
1 2 .0 1 3.1
1 3 .0 1 1.3
>>> 1 2 3 .0 .01 1 16.1 <<<
As I understand this, either I have screwed up somewhere, or the
program interprets the third line as "1 vs. superlocus 2+3", and I
get a genuine result. But 16 seems much too high!
Can anyone clarify this for me?
Mike Morris
*******************************************************************
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
