Detecting Environment-Dependent Diversification From Phylogenies: A Simulation Study and Some Empirical Illustrations [0.03%]
从系谱中检测环境依赖分化：一项模拟研究及实证说明
Eric Lewitus,Hélène Morlon
Eric Lewitus
Understanding the relative influence of various abiotic and biotic variables on diversification dynamics is a major goal of macroevolutionary studies. Recently, phylogenetic approaches have been developed that make it possible to estimate t...
Leo Van Iersel,Mark Jones,Celine Scornavacca
Leo Van Iersel
Phylogenetic networks are well suited to represent evolutionary histories comprising reticulate evolution. Several methods aiming at reconstructing explicit phylogenetic networks have been developed in the last two decades. In this article,...
Crowds Replicate Performance of Scientific Experts Scoring Phylogenetic Matrices of Phenotypes [0.03%]
crowds与专家一样能根据表型对系统发育矩阵的评分性能进行复制
Maureen A O&#x;Leary,Kenzley Alphonse,Arce H Mariangeles et al.
Maureen A O&#x;Leary et al.
Scientists building the Tree of Life face an overwhelming challenge to categorize phenotypes (e.g., anatomy, physiology) from millions of living and fossil species. This biodiversity challenge far outstrips the capacities of trained scienti...
Online Bayesian Phylogenetic Inference: Theoretical Foundations via Sequential Monte Carlo [0.03%]
基于顺序蒙特卡罗的在线贝叶斯系统发育推理：理论基础
Vu Dinh,Aaron E Darling,Frederick A Matsen Iv
Vu Dinh
Phylogenetics, the inference of evolutionary trees from molecular sequence data such as DNA, is an enterprise that yields valuable evolutionary understanding of many biological systems. Bayesian phylogenetic algorithms, which approximate a ...
Complex Models of Sequence Evolution Require Accurate Estimators as Exemplified with the Invariable Site Plus Gamma Model [0.03%]
复杂的序列进化模型需要准确的估计方法——以不变位点加Γ模型为例
Lam-Tung Nguyen,Arndt von Haeseler,Bui Quang Minh
Lam-Tung Nguyen
The invariable site plus $/Gamma$ model (I$+/Gamma)$ is widely used to model rate heterogeneity among alignment sites in maximum likelihood and Bayesian phylogenetic analyses. The proof that the I$+$ continuous $/Gamma$ model is identifiabl...
Effective Online Bayesian Phylogenetics via Sequential Monte Carlo with Guided Proposals [0.03%]
基于指导提议的顺序蒙特卡洛的在线贝叶斯系统发生学的有效性研究
Mathieu Fourment,Brian C Claywell,Vu Dinh et al.
Mathieu Fourment et al.
Modern infectious disease outbreak surveillance produces continuous streams of sequence data which require phylogenetic analysis as data arrives. Current software packages for Bayesian phylogenetic inference are unable to quickly incorporat...
A Two-State Model of Tree Evolution and Its Applications to Alu Retrotransposition [0.03%]
应用于Alu逆转录转座的树木演化的二元模型及其应用
Niema Moshiri,Siavash Mirarab
Niema Moshiri
Models of tree evolution have mostly focused on capturing the cladogenesis processes behind speciation. Processes that derive the evolution of genomic elements, such as repeats, are not necessarily captured by these existing models. In this...
The Efficacy of Consensus Tree Methods for Summarizing Phylogenetic Relationships from a Posterior Sample of Trees Estimated from Morphological Data [0.03%]
基于形态数据估计的后验树样本的系统发生关系的共识树方法的有效性总结摘要英文题目翻译：总结形态数据估计的后验树样本的系统发育关系的共识树方法的功效
Joseph E O&#x;Reilly,Philip C J Donoghue
Joseph E O&#x;Reilly
Consensus trees are required to summarize trees obtained through MCMC sampling of a posterior distribution, providing an overview of the distribution of estimated parameters such as topology, branch lengths, and divergence times. Numerous c...
Reconstructing Ecological Niche Evolution When Niches Are Incompletely Characterized [0.03%]
生态位特征不完整情况下的生态位演化重构
Erin E Saupe,Narayani Barve,Hannah L Owens et al.
Erin E Saupe et al.
Evolutionary dynamics of abiotic ecological niches across phylogenetic history can shed light on large-scale biogeographic patterns, macroevolutionary rate shifts, and the relative ability of lineages to respond to global change. An unresol...