Sentence examples for model with recombination from inspiring English sources
Samples were simulated based on a coalescent model with recombination [60], [61].
The interval program identifies recombination by fitting a coalescent model with recombination and mutation to the sequence data using a Markov Chain Monte Carlo approach.
These were complemented with EHH tests (among others) in which the significance was obtained by a novel approach using extensive simulations under the coalescent model with recombination.
We compared the fit of a neutral evolution model with recombination (M7) with one allowing for positive selection (M8), using a likelihood-ratio test (LRT).
Estimations were carried out under a model with recombination (−MR0 option), with the initial 1000 iterations discarded as burn-in, 1 as thinning interval and 1000 post-burnin iterations.
This tree served as a starting tree for a site-specific analysis of positive selection in Codeml v4.8 [ 39], which compared the fit of a neutral evolution model with recombination (M7) with one allowing for positive selection (M8), using a likelihood-ratio test (LRT).
In a model with biased recombination, a larger fraction of recombination events are between close relatives and therefore have little effect and would tend to go undetected by methods that do not account for it.
At each stage, we assume a Wright island model with no recombination, and 20 individuals were sampled.
Our model with biased recombination is therefore able to reproduce the observed summary statistics and represents a good fit to the data.
If a model was fitted with only GC content, the effect was positive although the model explained much lower variability than a model with only recombination rate (results not presented).
We assessed the significance of neutrality test statistics by comparing the observed test values to those obtained by 10000 coalescent simulations using sample size and number of segregating sites as variables and assuming a standard neutral model with no recombination.
