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Because SeqEM uses sample-based maximum likelihood estimates of the parameters rather than true parameter values in its Bayes classifier, a misspecified model for the sample genotype frequencies means that these parameters may not be consistently estimated.
To do so, we used the phylogeny as determined above, and computed codon-based maximum likelihood estimates (see Methods) of evolutionary distance based on alignments of 3899 genes for which we had 1 to 1 orthologs in all of the sensu stricto species, and that were syntenic between S. arbicolus and S. cerevisiae.
A phylogenetically based maximum likelihood method was used to estimate the selective pressure acting on coding regions.
We then used discrete-based maximum likelihood [ 42] to estimate ancestral states for each internal node of the tree.
A variance components-based maximum likelihood method was used to estimate the h2 of the different serum inflammatory markers while simultaneously adjusting for the effects of known CVD risk factors, such as age and smoking.
We develop a hidden Markov model based maximum-likelihood approach for estimating the selection coefficient in a single population from time series data of allele frequencies.
For the official German NA EFL tests, Tiffin-Richards (2011) reported an expected classification accuracy of.76 (.90) on the five CEFR proficiency levels, based on maximum likelihood estimates of examinee ability and their standard errors.
Parameter estimates and standard errors were based on maximum likelihood estimates.
The method used was based on maximum likelihood estimates of the recombination fraction [ 21].
Significance tests and confidence intervals for these odds ratios are based on maximum likelihood estimates of the regression parameters.
Based on maximum likelihood estimates of the gene trees obtained from these clusters, gene tree parsimony correctly inferred the accepted species tree with strong statistical support.
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