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Every 100th generation a sample was taken from the MCMC chains (after a burn-in-phase of 1 million generations).
In the final generation, a sample of n progeny was obtained in the same manner of reproduction of the respective breeding system.
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Adventurous moviegoers will want see the program "Next Generation," a sampler of 13 short films from 12 German film schools encompassing many different styles, which has its second and final screening next Sunday.
Bayesian analyses were performed using the program MrBayes [83], with the Markov Chain Monte Carlo search run under the following conditions: 4 chains, 106 generations, a sample frequency of 100 generations and a "burn-in" of 2500 trees.
Generation of a sample of random data according to a specified random mechanism.
The main loop includes the two main tasks that every CE method must perform, namely, the generation of a sample and the updating of the parameters associated with the chosen probability distribution.
4 parallel MCMC chains were run for 1,000,000 generations, with a sample frequency of 100 generations and a burn-in of 5,000 generations.
The dataset was also analyzed with MrBayes v3.1.2 [ 26, 27] (six substitution rates with a proportion of invariant sites, two runs with eight chains each for 2 million generations with a sample frequency of 100 generations, and a burn-in of 50,000 generations).
Bayesian analyses were performed with the Markov Chain Monte Carlo search run with 4 chains for 10 generations, with a sample frequency of 100 generations and a "burn-in" of 2500 trees.
The analysis consisted of two runs with four chains each, run for 10,000,000 generations with a sample tree taken every 1,000.
Each codon position and each gene family were allocated to unlinked substitution rate data partitions all allowing 6 substitution types, a proportion of invariable sites, a gamma distribution of variable site rates with 4 rate categories and a uniform prior for the topology and was run for 10,000,000 generations with a sample frequency of 10,000.
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