منابع مشابه
A Metric on Phylogenetic Tree Shapes
The shapes of evolutionary trees are influenced by the nature of the evolutionary process but comparisons of trees from different processes are hindered by the challenge of completely describing tree shape. We present a full characterization of the shapes of rooted branching trees in a form that lends itself to natural tree comparisons. We use this characterization to define a metric, in the se...
متن کاملPhylogenetic tree shapes resolve disease transmission patterns
BACKGROUND AND OBJECTIVES Whole-genome sequencing is becoming popular as a tool for understanding outbreaks of communicable diseases, with phylogenetic trees being used to identify individual transmission events or to characterize outbreak-level overall transmission dynamics. Existing methods to infer transmission dynamics from sequence data rely on well-characterized infectious periods, epidem...
متن کاملMetric learning for phylogenetic tree construction
We introduce new methods for phylogenetic tree construction by using metric learning to optimize the power of phylogenetic invariants on trees with four leaves. Phylogenetic invariants are polynomials in the joint probabilities which vanish under a model of evolution on a phylogenetic tree. They have been used for tree construction with only partial success partly because a good scoring metric ...
متن کاملA Distance Metric for Tree-Sibling Time Consistent Phylogenetic Networks
Motivation: The presence of reticulate evolutionary events in phylogenies turn phylogenetic trees into phylogenetic networks. These events imply in particular that there may exist multiple evolutionary paths from a non-extant species to an extant one, and this multiplicity makes the comparison of phylogenetic networks much more difficult than the comparison of phylogenetic trees. In fact, all a...
متن کاملWorkshop: Phylogenetic approaches to diversification Inferring evolutionary past from phylogenetic tree shapes
s of posters • Krzysztof Bartoszek (Chalmers U., Gothenburg) Conditioned branching processes and phenotype evolution Abstract. Conditioned branching processes have recently received a lot of attention in the biomathematical literature. They are useful for modelling and developing software in the field of phylogenetic tree inference. However on top of this they can also be combined with continuo...
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ژورنال
عنوان ژورنال: Systematic Biology
سال: 2017
ISSN: 1063-5157,1076-836X
DOI: 10.1093/sysbio/syx046