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A burn-in period of 50,000 iterations was used during which convergence was completed for all models (as assessed by the Gelman-Rubin statistics and visual analysis of trace-plots of multiple chains).
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BALI-PHY's algorithm has very short burn-in times, and in the case of our comparatively small data-sets, convergence was complete by the tenth generation for all three partitions characterized by length differences.
This makes it clear that y m will converge to a vector proportional to x∞, the principal eigenvector of W. Once this convergence is complete, each new mutation simply reduces the fraction of mutants that fold by a factor of ⟨ν⟩∞, the principal eigenvalue of W (and the spectral radius of the neutral network normalized by the coordination number).
When the initial deviation is not large, the attitude convergence can be completed in one orbit.
The convergence analysis is completed with an investigation of the temporal discretisation.
Post-Gibbs analysis and convergence assessment were completed with POSTGIBBSF90 (version 3.04) [ 36].
Post-Gibbs analysis and convergence assessment were completed on the 9000 samples with POSTGIBBSF90 (version 3.04) [ 36].
The proof of the convergence in probability (2.10) is completed.
Thus, this procedure preferentially detects recent horizontally transferred genes for which the compositional convergence process has not been completed.
A convergence and divergence analysis will be completed in order to identify differences or similitudes between the different HIAs studied.
The proof of uniform convergence is then completed by applying the Volkov theorem [13].
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