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BUCKy is a Bayesian method of inference that combines information from individual trees to infer one tree [32]; it differs from standard consensus tree approaches in considering the support for each clade in each input tree during inference of the final tree.
The multiplicative constant p(D g,k) in Equation (5) is independent of Ig,k and cancels out during inference of the graphical model in Figure 1.
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This may then result in more errors during the inference of reasoning processes of computers.
Interestingly, this pattern was not observed during the inference of the reasoning processes conducted by computers.
As taking others' perspective requires resisting interference from processing of stimuli from the self-perspective [12], these two processes should coordinate inversely with each other during the inference of reasoning processes of human agents.
Interestingly, the negative correlation and enhanced functional connectivity between the precuneus and the vMPFC were observed during the inference of the reasoning process associated with human agents but not with computers, providing further evidence for the unique neurocognitive strategies involved during coping with HI.
This is the reason for not imposing any time constraints during the inference of the time-calibrated trees.
Finally, in this work, we have also addressed a mathematical issue related to the degrees of freedom that exist during the inference of dynamic fluxes from slopes of concentration data.
ML trees were estimated by means RAxML 7.3.2 using GTR nucleotide-substitution model + gamma distribution and GTRCAT model to be used during the inference of the best tree and bootstrapping phase respectively [ 63, 64] via the CIPRES portal [ 54].
For a given gene, the set of AP event dependencies that are known or that one wishes to allow during inference govern the complexity of the PSG that should be used.
The paper is organized as follows: The 'methods' section contains (a) a review of BNs and the biologically motivated assumptions and constraints that will be imposed during inference, (b) theoretical analysis of the search space for the inverse problem and (c) Inference Algorithm.
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