Search Results - "Ane, Cecile"

Phylogenetic Trees and Networks Can Serve as Powerful and Complementary Approaches for Analysis of Genomic Data by Blair, Christopher, Ané, Cécile

“…Genomic data have had a profound impact on nearly every biological discipline. In systematics and phylogenetics, the thousands of loci that are now being…”
Get full text

Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting by Solis-Lemus, Claudia, Ane, Cecile

“…Phylogenetic networks are necessary to represent the tree of life expanded by edges to represent events such as horizontal gene transfers, hybridizations or…”
Get full text

PhyloNetworks: A Package for Phylogenetic Networks by Solís-Lemus, Claudia, Bastide, Paul, Ané, Cécile

“…PhyloNetworks is a Julia package for the inference, manipulation, visualization, and use of phylogenetic networks in an interactive environment. Inference of…”
Get full text

A Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models by si Tung Ho, Lam, Ané, Cécile

“…We developed a linear-time algorithm applicable to a large class of trait evolution models, for efficient likelihood calculations and parameter inference on…”
Get full text

Fast and accurate detection of evolutionary shifts in Ornstein–Uhlenbeck models by Khabbazian, Mohammad, Kriebel, Ricardo, Rohe, Karl, Ané, Cécile, Hansen, Thomas

“…Summary The detection of evolutionary shifts in trait evolution from extant taxa is motivated by the study of convergent evolution, or to correlate shifts in…”
Get full text

Rphylopars: fast multivariate phylogenetic comparative methods for missing data and within‐species variation by Goolsby, Eric W., Bruggeman, Jorn, Ané, Cécile, Fitzjohn, Richard

“…Summary Over the past several years, phylogenetic comparative studies have increasingly approached trait evolution in a multivariate context, with a number of…”
Get full text

Assessing the fit of the multi-species network coalescent to multi-locus data by Cai, Ruoyi, Ané, Cécile

“…Abstract Motivation With growing genome-wide molecular datasets from next-generation sequencing, phylogenetic networks can be estimated using a variety of…”
Get full text

Identifiability of local and global features of phylogenetic networks from average distances by Xu, Jingcheng, Ané, Cécile

“…Phylogenetic networks extend phylogenetic trees to model non-vertical inheritance, by which a lineage inherits material from multiple parents. The…”
Get full text

Summary Tests of Introgression Are Highly Sensitive to Rate Variation Across Lineages by Frankel, Lauren E, Ané, Cécile

“…Abstract The evolutionary implications and frequency of hybridization and introgression are increasingly being recognized across the tree of life. To detect…”
Get full text

Intrinsic inference difficulties for trait evolution with Ornstein‐Uhlenbeck models by Ho, Lam Si Tung, Ané, Cécile, Paradis, Emmanuel

“…Summary For the study of macroevolution, phenotypic data are analysed across species on a dated phylogeny using phylogenetic comparative methods. In this…”
Get full text

BUCKy: Gene tree/species tree reconciliation with Bayesian concordance analysis by Larget, Bret R., Kotha, Satish K., Dewey, Colin N., Ané, Cécile

“…Motivation: BUCKy is a C++ program that implements Bayesian concordance analysis. The method uses a non-parametric clustering of genes with compatible trees,…”
Get full text

Inconsistency of Species Tree Methods under Gene Flow by Solís-Lemus, Claudia, Yang, Mengyao, Ané, Cécile

“…Coalescent-based methods are now broadly used to infer evolutionary relationships between groups of organisms under the assumption that incomplete lineage…”
Get full text

Inference of Adaptive Shifts for Multivariate Correlated Traits by Bastide, Paul, Ané, Cécile, Robin, Stéphane, Mariadassou, Mahendra

“…To study the evolution of several quantitative traits, the classical phylogenetic comparative framework consists of a multivariate random process running along…”
Get full text

KIMGENS: a novel method to estimate kinship in organisms with mixed haploid diploid genetic systems robust to population structure by Wang, Yen-Wen, Ané, Cécile

“…Abstract Motivation Kinship estimation is necessary for evaluating violations of assumptions or testing certain hypotheses in many population genomic studies…”
Get full text

Comparing Two Bayesian Methods for Gene Tree/Species Tree Reconstruction: Simulations with Incomplete Lineage Sorting and Horizontal Gene Transfer by Chung, Yujin, Ané, Cécile

“…With the increasing interest in recognizing the discordance between gene genealogies, various gene tree/species tree reconciliation methods have been…”
Get full text

PhyloCoalSimulations: A Simulator for Network Multispecies Coalescent Models, Including a New Extension for the Inheritance of Gene Flow by Fogg, John, Allman, Elizabeth S, Ané, Cécile

“…Abstract We consider the evolution of phylogenetic gene trees along phylogenetic species networks, according to the network multispecies coalescent process,…”
Get full text

Detecting and locating whole genome duplications on a phylogeny: a probabilistic approach by Rabier, Charles-Elie, Ta, Tram, Ané, Cécile

“…Whole genome duplications (WGDs) followed by massive gene loss occurred in the evolutionary history of many groups. WGDs are usually inferred from the age…”
Get full text

Bayesian species delimitation combining multiple genes and traits in a unified framework by Solís-Lemus, Claudia, Knowles, L. Lacey, Ané, Cécile

“…Delimitation of species based exclusively on genetic data has been advocated despite a critical knowledge gap: how might such approaches fail because they rely…”
Get full text

Predictive factors of reading in children with developmental language disorder by Macchi, Lucie, Schelstraete, Marie-Anne, Ané, Cécile, Boidein, Françoise, Riquet, Audrey, Casalis, Séverine

“…•Oral language skills are strong predictors of reading skills.•Children with Developmental Language Disorder encounter reading difficulties in higher…”
Get full text

Ecophysiological adaptations shape distributions of closely related trees along a climatic moisture gradient by Smith, Duncan D., Adams, Mark A., Salvi, Amanda M., Krieg, Christopher P., Ané, Cécile, McCulloh, Katherine A., Givnish, Thomas J.

“…Tradeoffs between the energetic benefits and costs of traits can shape species and trait distributions along environmental gradients. Here we test predictions…”
Get full text