Related papers: The Bayesian `star paradox' persists for long fini…

We show that the Bayesian star paradox, first proved mathematically by Steel and Matsen for a specific class of prior distributions, occurs in a wider context including less regular, possibly discontinuous, prior distributions.

Bayesian inference is now a leading technique for reconstructing phylogenetic trees from aligned sequence data. In this short note, we formally show that the maximum posterior tree topology provides a statistically consistent estimate of a…

Persistence phenomena in colonization processes could explain the negative results of SETI search preserving the possibility of a galactic civilization. However, persistence phenomena also indicates that search of technological…

Astrophysical paradoxes are the paradoxes of physics. The main motivation of a formulated paradox is clearly recognized in the scientific environment because the phenomenon of a paradox itself has become interesting. There is an explanation…

The Bayesian method is noted to produce spuriously high posterior probabilities for phylogenetic trees in analysis of large datasets, but the precise reasons for this over-confidence are unknown. In general, the performance of Bayesian…

During this last decade our knowledge of the evolutionary properties of stars has significantly improved. This result has been achieved thanks to our improved understanding of the physical behavior of stellar matter in the thermal regimes…

This short note provides a simple formal proof of a folklore result in statistical phylogenetics concerning the convergence of bootstrap support for a tree and its edges.

One signature of an expanding universe is the time-variation of the cosmological abundances of its different components. For example, a radiation-dominated universe inevitably gives way to a matter-dominated universe, and critical moments…

Given overlapping subsets of a set of taxa (e.g. species), and posterior distributions on phylogenetic tree topologies for each of these taxon sets, how can we infer a posterior distribution on phylogenetic tree topologies for the entire…

Terraces are potentially large sets of trees with precisely the same likelihood or parsimony score, which can be induced by missing sequences in partitioned multi-locus phylogenetic data matrices. The set of trees on a terrace can be…

We discuss epistemological and methodological aspects of the Bayesian approach in astrophysics and cosmology. The introduction to the Bayesian framework is given for a further discussion concerning the Bayesian inference in physics. The…

The now classical replicator equation describes a wide variety of biological phenomena, including those in theoretical genetics, evolutionary game theory, or in the theories of the origin of life. Among other questions, the permanence of…

Likelihood-based methods are widely considered the best approaches for reconstructing ancestral states. Although much effort has been made to study properties of these methods, previous works often assume that both the tree topology and…

The Persistent-Phylogeny Model is an extension of the widely studied Perfect-Phylogeny Model, encompassing a broader range of evolutionary phenomena. Biological and algorithmic questions concerning persistent phylogeny have been intensely…

Markov chain Monte Carlo algorithms play a key role in the Bayesian approach to phylogenetic inference. In this paper, we present the first theoretical work analyzing the rate of convergence of several Markov chains widely used in…

The purpose of this paper is to explore a resolution for the Faint Young Sun Paradox that has been mostly rejected by the community, namely the possibility of a somewhat more massive young Sun with a large mass loss rate sustained for two…

As researchers collect increasingly large molecular data sets to reconstruct the Tree of Life, the heterogeneity of signals in the genomes of diverse organisms poses challenges for traditional phylogenetic analysis. A class of phylogenetic…

Statistical consistency in phylogenetics has traditionally referred to the accuracy of estimating phylogenetic parameters for a fixed number of species as we increase the number of characters. However, as sequences are often of fixed length…

For more than a half century cosmologists have been guided by the assumption that matter is distributed homogeneously on sufficiently large scales. On the other hand, observations have consistently yielded evidence for inhomogeneity in the…

Massive stars have a profound influence on the Universe, but their formation remains poorly understood. We review the current status of observational and theoretical research in this field, describing the various stages of an evolutionary…