Is it possible to make a genetic map without a mapping population (a few crosses with many individuals per cross)
ie could we make a genetic map from a complex breeding population of known pedigree (with many families and few individuals per family, but with all families connected through their pedigree) ?
A genetic map is basically a measure of recombination events, so, if you are able to map crossing-over, then yes, you can use a complex population to build a genetic map. Maybe computation will be harder, but it should work. However, if you have too many missing links in the pedigree I think you might have issues with accuracy.
Mapping in humans has been undertaken without "many individuals per cross", but has tended to rely on relatively large families, e.g. 4 or more offspring. If you have unrelated families with one offspring, then you can't untangle the parental phase (roughly, you use one offpring per family to estimate phase). For a complex family, there are many individuals for which phase must be estimated, but information gets combined.
In summary, at one extreme there will be some family structures that do not allow linkage estimates, while those with many individuals per cross will do the best job (most information per genotyping effort).
David, i don't find Crymap on the web, could you send me the download link please?
Hi, actually it's CRI-MAP. I am not using it personnally but I found the two following links:
http://www.animalgenome.org/tools/share/crimap/
http://compgen.rutgers.edu/Crimap/Default.aspx
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