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4.4 kin statements

At least one of the following `compute ...' statements are required to run program kin.

compute [component M] kinship coefficient N1 N2...

This statement names one or more pairs of pedigree members for which the kinship coefficient is to be computed.

If there is more than one pedigree component, the component number is specified. (By component, we mean a connected pedigree.) The first component chronologically in the pedigree file is component 1, etc.

One of these statements is given for each component for which kinship coefficients are to be computed.

compute [component M] inbreeding coefficient N1...

In this statement, the names of pedigree members for which the inbreeding coefficient is to be computed are given. Again, if there is more than one pedigree component, there is a statement for each component for which inbreeding coefficients are to be computed.

compute [component M] two-locus inbreeding coefficient N1...

This statement requests the computation of two-locus inbreeding coefficients, i.e. the probability of ibd at both loci.

The names of pedigree members for which this coefficient is to be computed are given. If there are pedigree components, the component number is included.

For the recombination frequencies at which the coefficients are computed, see the following statement.

set recombination frequencies X1 X2...

Two-locus inbreeding coefficients are computed for each of the list of recombination frequencies. These frequencies are in the range of 0.0 to 0.5. If frequencies are not given, the default values are: 0.0, 0.01, 0.04, 0.05, 0.10, 0.18, 0.30, and 0.50.



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