245 items. Top items listed below.

Towards an evolutionarily appropriate null model: jointly inferring demography and purifying selection 83 21 5 4

Inference of Population Admixture Network from Local Gene Genealogies: a Coalescent-based Maximum Likelihood Approach 83 4

Detecting and quantifying natural selection at two linked loci from time series data of allele frequencies with forward-in-time simulations 83 4

When species trees disagree: an approach consistent with the coalescent that quantifies phylogenomic support for contentious relationships 83 40 4

CellPhy: accurate and fast probabilistic inference of single-cell phylogenies from scDNA-seq data 83 13 4

Inference of population genetic parameters from the continuously serial-sampled sequences of human seasonal influenza A/H3N2 83 21 4

Locally adaptive Bayesian birth-death model successfully detects slow and rapid rate shifts 83 40 21 4

Insights from a general, full-likelihood Bayesian approach to inferring shared evolutionary events from genomic data: Inferring shared demographic events is challenging 83 21 5 4

Inferring transmission bottleneck size from viral sequence data using a novel haplotype reconstruction method 83 41 4

Species Tree Inference under the Multispecies Coalescent on Data with Paralogs is Accurate 83 40 21 4

A computationally tractable birth-death model that combines phylogenetic and epidemiological data 83 4

Practical Speedup of Bayesian Inference of Species Phylogenies by Restricting the Space of Gene Trees 83 4

Accounting for Gene Flow from Unsampled `Ghost' Populations while Estimating Evolutionary History under the Isolation with Migration Model 83 21 5 4

Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic experiment 83 4

Maximum likelihood estimation of natural selection and allele age from time series data of allele frequencies 83 4

Using a supervised principal components analysis for variable selection in high-dimensional datasets reduces false discovery rates 123 83 4

Permutation tests for hypothesis testing with animal social data: problems and potential solutions 123 83 4

Chromosome-scale inference of hybrid speciation and admixture with convolutional neural networks 83 26 4

A Phylogenetic Approach to Inferring the Order in Which Mutations Arise during Cancer Progression 83 14 4

Phylogenetic signal is associated with the degree of variation in root-to-tip distances 83 40 21 5 4

On the automatic annotation of gene functions using observational data and phylogenetic trees 162 13 4

A Bayesian inference tool for identifying artifactual calls from differential transcript abundance analyses 83 4

Power analysis of transcriptome-wide association study: implications for practical protocol choice 145 123 19 4

Determining the probability of hemiplasy in the presence of incomplete lineage sorting and introgression 83 40 21 4

Consistency of SVDQuartets and Maximum Likelihood for Coalescent-based Species Tree Estimation 83 40 4

Fast and accurate approximation of the joint site frequency spectrum of multiple populations 145 83 4

Deep learning for population size history inference: design, comparison and combination with approximate Bayesian computation 83 26 4

Recessive deleterious variation has a limited impact on signals of adaptive introgression in human populations 21 5 4

Estimating cumulative incidence of SARS-CoV-2 with imperfect serological tests: a cutoff-free approach 83 4

An empirical examination of sample size effects on population demographic estimates in birds using single nucleotide polymorphism (SNP) data 83 5 4

Ignoring fossil age uncertainty leads to inaccurate topology and divergence times in time calibrated tree inference 83 40 4

Efficiently summarizing relationships in large samples: a general duality between statistics of genealogies and genomes 83 4

Capturing biodiversity complexities while accounting for imperfect detection: the application of occupancy-based diversity profiles. 83 17 5 4

Variation in recombination rate affects detection of outliers in genome scans under neutrality 21 5 4

Macroevolutionary analysis of discrete character evolution using parsimony-informed likelihood 83 21 4

Comparison of methods for estimating genetic correlation between complex traits using GWAS summary statistics 19 4

GeneRax: A tool for species tree-aware maximum likelihood based gene tree inference under gene duplication, transfer, and loss. 162 83 13 4

How well do crop modeling groups predict wheat phenology, given calibration data from the target population? 182 83 38 4

Evaluation of the minimum sampling design for population genomic and microsatellite studies. An analysis based on wild maize. 145 83 21 5 4

MRLocus: identifying causal genes mediating a trait through Bayesian estimation of allelic heterogeneity 19 13 4

The impact of purifying and background selection on the inference of population history: problems and prospects 83 21 5 4

Inferring Causal Direction Between Two Traits in the Presence of Horizontal Pleiotropy with GWAS Summary Data 123 83 19 4

Numerical simulation of the two-locus Wright-Fisher stochastic differential equation with application to approximating transition probability densities 83 38 4

Variance-adjusted Mahalanobis (VAM): a fast and accurate method for cell-specific gene set scoring 43 4

Rare variant enriched identity-by-descent enables the detection of distant relatedness and older divergence between populations 145 83 4

Robust Genomic Modelling Using Expert Knowledge about Additive, Dominance and Epistasis Variation 83 53 4