Selecting a Window Size for Phylogenomic Analyses of Whole Genome Alignments using AIC [0.03%]
利用AIC选择全基因组比对的系统基因组分析窗口大小
Jeremias Ivan,Paul Frandsen,Robert Lanfear
Jeremias Ivan
Gene tree discordance along a set of aligned genomes presents a challenge for phylogenomic methods to identify the non-recombining regions and reconstruct the phylogenetic tree for each region. To address this problem, many studies used the...
Species Diversification in the Sky Islands of Southwestern China Revealed by Genomic, Introgression and Demographic Analyses of Asian Shrew Moles [0.03%]
基于基因组、渐渗和人口遗传分析揭示的中国西南天岛地区亚洲隐 mole 物种分化
Yi-Xian Li,Zhong-Zheng Chen,Quan Li et al.
Yi-Xian Li et al.
The Mountains of Southwest China, a global biodiversity hotspot, have a unique "sky island" landscape with high diversity of both ancient and recent-formed species. While their distribution patterns offer significant insights into diversifi...
Phylogenetic Analysis of Characters with Dependencies under Maximum Likelihood [0.03%]
依赖性字符的最大似然谱系分析
Pablo A Goloboff
Pablo A Goloboff
The dependencies between characters used in phylogenetic analysis (e.g., inapplicabilities, functional dependencies) can be taken into account by using combinations of character states as possible ancestral morphotypes, and using appropriat...
Emmanuel F A Toussaint,Fabien L Condamine,Ana Paula Dos Santos De Carvalho et al.
Emmanuel F A Toussaint et al.
Characterizing drivers governing the diversification of species-rich lineages is challenging. Although butterflies are one of the most well-studied groups of insects, there are few comprehensive studies investigating their diversification d...
PhyloFusion- Fast and easy fusion of rooted phylogenetic trees into rooted phylogenetic networks [0.03%]
PhyloFusion-快速且简单的将有根的系统发生树融合为有根的系统发育网络
Louxin Zhang,Banu Cetinkaya,Daniel H Huson
Louxin Zhang
Unrooted phylogenetic networks are commonly used to represent evolutionary data in the presence of incompatibilities. While rooted phylogenetic networks offer a more explicit framework for depicting evolutionary histories involving reticula...
Revisiting the Multispecies Coalescent Model fit with an example from a complete molecular phylogeny of the Liolaemus wiegmannii species group (Squamata: Liolaemidae) [0.03%]
利用Liolaemus wiegmannii种组(石龙子目：Liolaemida科)完整分子系统发育树重新研究多物种溯祖模型拟合性
Joaquín Villamil,Mariana Morando,Luciano J Avila et al.
Joaquín Villamil et al.
Departures from the Multispecies Coalescent (MSC) assumptions could cause artefactual topologies and node height estimates, and therefore, trees inferred without MSC model fit testing could potentially misrepresent an accurate approximation...
torchtree: flexible phylogenetic model development and inference using PyTorch [0.03%]
TorchTree：使用PyTorch灵活的生成模型开发和推理
Mathieu Fourment,Matthew Macaulay,Christiaan J Swanepoel et al.
Mathieu Fourment et al.
Bayesian inference has predominantly relied on the Markov chain Monte Carlo (MCMC) algorithm for many years. However, MCMC is computationally laborious, especially for complex phylogenetic models of time trees. This bottleneck has led to th...
Ana Serra Silva,Karen Siu-Ting,Christopher J Creevey et al.
Ana Serra Silva et al.
Missing data is a long standing issue in phylogenetic inference, which often results in high levels of taxonomic instability, obscuring otherwise well supported relationships. Multiple approaches have been developed to deal with the negativ...