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The transition rate estimate ν (from R to I) is small and possibly dependent on stress events (the authors of the Kranker et al. study [ 10] report that two cohorts in which animals began shedding in a second round had a slurry overflow which can be considered a stressful event).
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As part of exploring the evolution of traits that enable plants to survive freezing temperatures, Zanne et al.26 compared a set of transition rate estimates at the level of the angiosperms to those estimated for Magnoliidae, Monocotyledoneae, Superrosidae and Superasteridae.
Using these frequencies, we assess if the transition rate estimated by the GLM (agnostic of the tree structure) is capable of explaining the observed correlations in the genealogies and therefore is an adequate description of the data.
We also compared the ratio of origins and reversals of each character under parsimony (Table 5) with the forward-reverse ratio of transition rates estimated with the Mk2 model for the full tree (Supplementary Table 1).
Results of the character state reconstruction using the AsymmMK model with transition rates estimated by Mesquite 2.71 [ 60] are displayed in Figure 5.
Because there is no evidence on the long-term outcomes of anti-VEGF therapy on either VA or CS, it was assumed that transition rates estimated from the 54-week trial were maintained to 5 years.
We investigate whether the transition rate λ estimated by the GLM is capable of explaining the observed correlated transition events within the cellular genealogies.
CS measurement was measured monocularly in the trial, therefore binocular CS transition rates were estimated using a published algorithm, which estimates binocular CS to be the square root of the sum of the square of each eye [ 16].
Using a Bayesian framework, posterior distributions of the transition rates were estimated given a distribution of phylogenetic trees.
Transition rates were estimated to be almost equal.
Posterior probabilities for character states were recorded for relevant nodes, and character transition rates were estimated.
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