10.4 lm_ibdtests statements

compute ibd statistics

Required.

set ibd measures [Spairs] [Srobdom] [Saffect] [Slambda]

Optional. lm_ibdtests uses 1 to 4 measures to perform ibd tests for linage; these are specified in the order [Spairs] [Srobdom] [Saffect] [Slambda]. Spairs, Srobdom, and Slambda may be specified for both normal and permutation tests; Saffect may not currently be specified with the normal tests option.

set ibd tests [normal] [permutation]

Optional. Normal and/or permutation tests may be specified.

set ibd permutations I

Optional. Need to be specified when the permutation test is requested through `set ibd tests'. The default is 999. It is recommended that at least 50 permutations are used.