[ < ] | [ > ] | [ << ] | [ Up ] | [ >> ] | [Top] | [Contents] | [Index] |
Additional statements for lm_bayes
include the following:
set preliminary iterations I
Following burn-in, lm_bayes
performs preliminary iterations to
calculate the pseudo-priors. These pseudo-priors are used to encourage the
MCMC sampler to visit test positions of low posterior probability.
set sequential imputation proposals every I iterations
This option applies to lm_bayes
's preliminary and main MCMC iterations.
It allows the MCMC chain to "restart" every Ith iteration.
Sequential imputation is used to propose potential restart
configurations which are accepted/rejected with Metropolis-Hastings
probability.
set test position window I
This lm_bayes
statement specifies the window size for the
Metropolis-Hastings algorithm. I is the number of hypothesized trait
positions on either side of the current position, with equal weight
given to the 2*I + 1 trait positions. The default is window size is 6.