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SKIP LARGE

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Summary: determine how large pedigree are dealt with
Argument: < 'on' or 'off' >
Default:  displays the current setting

Because of the memory and time limitations described in the 'max bits' section, certain pedigrees may not be able to be computed. In this instance a warning message is displayed and one of two things will happen:

if 'skip large' is ON -

the pedigree will be skipped over entirely and the computation will continue with the next pedigree in the data set

if 'skip large' is OFF -

pedigree individuals will be trimmed off until the pedigree is small enough to be analyzed within the current setting of 'max bits'. This trimming is done such that the maximum amount of linkage information is retained - the first individuals to be eliminated will be unaffected individuals at the bottom of the pedigree as these individuals add very little to the NPL statistic (which measures sharing among affected individuals) and will affect the LOD score somewhat depending on the proposed penetrance of the disease allele.

In either case, it is recommended that for very large pedigrees (where a large number of individuals are not being analyzed) you consider dividing the pedigree into two or more reasonably sized pedigrees that can be analyzed in full.