Likelihood Analysis with Metropolis Algorithm using Random Coalescence
LAMARC also approximates a summation over all possible genealogies that could explain the observed sample, which may be sequence, SNP, microsatellite, or electrophoretic data.
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What's New in This Release:
- FIXED: major bug with data likelihood calculations for runs modeling recombination. All runs which inferred recombination rate or held it to a non-zero value in versions 2.1.2 through 2.1.5 should be re-run.
- FIXED: calculation of invariant data term for SNP data modeled with a per-base error rate. All 2.1.5 runs which used the data uncertainty model on SNP data should be re-run.
- UPDATED: random number generator to use the Boost library, and added guards against returning values of exactly 0 or 1 for double values. No previous runs need be re-done, but if you had a data set with an unexplained crash, this may fix it.