Cover Image

Inhomogeneous continuous-time Markov chains to infer flexible time-varying evolutionary rates

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Datta, Pratyusa, Lemey, Philippe, Suchard, Marc A.
Format:	Preprint
Published:	2025
Subjects:	Methodology Populations and Evolution
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

Infinite Mixture Models for Improved Modeling of Across-Site Evolutionary Variation
by: Gill, Mandev S., et al.
Published: (2024)

Extracting useful information about reversible evolutionary processes from irreversible evolutionary accumulation models
by: Johnston, Iain G.
Published: (2026)

Detection of evolutionary shifts in variance under an Ornsten-Uhlenbeck model
by: Zhang, Wensha, et al.
Published: (2023)

Random evolutionary games and random polynomials
by: Duong, Manh Hong, et al.
Published: (2023)

Accounting for reporting delays in real-time phylodynamic analyses with preferential sampling
by: Medina, Catalina M., et al.
Published: (2024)

Causal attribution by the chain rule: unifying natural selection, learning, economics, and other disciplines
by: Frank, Steven A.
Published: (2026)

Torchtree: flexible phylogenetic model development and inference using PyTorch
by: Fourment, Mathieu, et al.
Published: (2024)

Hidden Markov modelling of spatio-temporal dynamics of measles in 1750-1850 Finland
by: Pasanen, Tiia-Maria, et al.
Published: (2024)

Semiparametric inference of effective reproduction number dynamics from wastewater pathogen surveillance data
by: Goldstein, Isaac H., et al.
Published: (2023)

Consensus-level substitution rates are distinct from the virion-level rate
by: Pascall, David J
Published: (2026)

Bayesian mixture models for phylogenetic source attribution from consensus sequences and time since infection estimates
by: Blenkinsop, Alexandra, et al.
Published: (2023)

A sequential approach to calibrate ecosystem models with multiple time series data
by: Oliveros-Ramos, Ricardo, et al.
Published: (2015)

On the importance of assessing topological convergence in Bayesian phylogenetic inference
by: Brusselmans, Marius, et al.
Published: (2024)

Detecting Evolutionary Change-Points with Branch-Specific Substitution Models and Shrinkage Priors
by: Ji, Xiang, et al.
Published: (2025)

Exact inference via quasi-conjugacy in two-parameter Poisson-Dirichlet hidden Markov models
by: Pria, Marco Dalla, et al.
Published: (2025)

The signal is not flushed away: Inferring the effective reproduction number from wastewater data in small populations
by: Goldstein, Isaac H., et al.
Published: (2025)

Identifiability of linear stochastic state-space models with application to ecology
by: Barraquand, Frederic, et al.
Published: (2025)

Phylogenetic least squares estimation without genetic distances
by: Chi, Peter B., et al.
Published: (2023)

Estimating the household secondary attack rate with the Incomplete Chain Binomial model
by: Lindstrøm, Jonas Christoffer, et al.
Published: (2024)

Assessing the Validity of the Fixed Tree Topology Assumption in Phylodynamic Inference
by: Fourment, Mathieu, et al.
Published: (2025)

Using theory-driven Integrated Population Models to evaluate competitive outcomes in stage-structured systems
by: Paquet, Matthieu, et al.
Published: (2025)

Algorithms for Reconstructing B Cell Lineages in the Presence of Context-Dependent Somatic Hypermutation
by: Li, Yongkang, et al.
Published: (2025)

Approaches to biological species delimitation based on genetic and spatial dissimilarity
by: d'Angella, Gabriele, et al.
Published: (2024)

Flexible inference of evolutionary accumulation dynamics using uncertain observational data
by: Renz, Jessica, et al.
Published: (2025)

Inhomogeneous branching trees with symmetric and asymmetric offspring and their genealogies
by: Andersen, Frederik M., et al.
Published: (2025)

Interplay between evolutionary and epidemic time scales challenges the outcome of control policies
by: Lamata-Otín, Santiago, et al.
Published: (2026)

Inferring infectiousness: a joint model of the within-host viral kinetics of SARS-CoV-2
by: Boyer, Christopher B., et al.
Published: (2026)

Calibrating COVID-19 SEIR models with time-varying effective contact rates
by: Gleeson, James P., et al.
Published: (2021)

Sensitivity analysis of epidemic forecasting and spreading on networks with probability generating functions
by: Boudreau, Mariah C., et al.
Published: (2025)

Generalized Machine Learning for Fast Calibration of Agent-Based Epidemic Models
by: Najafzadehkhoei, Sima, et al.
Published: (2025)

Filtering coupled Wright-Fisher diffusions
by: Boetti, Chiara, et al.
Published: (2024)

An introduction to statistical models used to characterize species-habitat associations with animal movement data
by: Florko, Katie R. N., et al.
Published: (2024)

Application of the chemical master equation and its analytical solution to the illness-death model
by: Brinks, Ralph
Published: (2024)

Improving the use of social contact studies in epidemic modelling
by: Britton, Tom, et al.
Published: (2024)

Bayesian Inference in Epidemic Modelling: A Beginner's Guide
by: Okolie, Augustine
Published: (2026)

Explicit modeling of density dependence in spatial capture-recapture models
by: Zhao, Qing, et al.
Published: (2024)

Comparative Analysis of Practical Identifiability Methods for an SEIR Model
by: Saucedo, Omar, et al.
Published: (2024)

A modelling perspective on mosquito infectiousness: time-varying transmission competence in arbovirus vector
by: Loisel, Léa, et al.
Published: (2026)

Foundations of ecological and evolutionary change
by: Duthie, A. Bradley, et al.
Published: (2024)

Early warning signals of non-critical transitions from linearised time-varying dynamics with applications to epidemic systems
by: Looker, Joshua, et al.
Published: (2026)