fastsimcoal2: demographic inference under complex evolutionary scenarios

Recent Evolutionary History of Tigers Highlights Contrasting Roles of Genetic Drift and Selection

(2021) Ellie E Armstrong et al.   MOLECULAR BIOLOGY AND EVOLUTION

Dating genomic variants and shared ancestry in population-scale sequencing data

(2020) Patrick K. Albers et al.   PLOS BIOLOGY

Population genomics of Vibrionaceae isolated from an endangered oasis reveals local adaptation after an environmental perturbation

(2020) Mirna Vázquez-Rosas-Landa et al.   BMC GENOMICS

Deep learning for population size history inference: Design, comparison and combination with approximate Bayesian computation

(2020) Théophile Sanchez et al.   Molecular Ecology Resources

dadi.CUDA: Accelerating Population Genetics Inference with Graphics Processing Units

(2020) Ryan N Gutenkunst   MOLECULAR BIOLOGY AND EVOLUTION

Approximate Bayesian computation with deep learning supports a third archaic introgression in Asia and Oceania

(2019) Mayukh Mondal et al.   Nature Communications

Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement

(2019) Kun Lu et al.   Nature Communications

SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal

(2019) Mathias Currat et al.   BIOINFORMATICS

Efficiently Inferring the Demographic History of Many Populations With Allele Count Data

(2019) Jack Kamm et al.   JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION

The population history of northeastern Siberia since the Pleistocene

(2019) Martin Sikora et al.   NATURE

Inferring whole-genome histories in large population datasets

(2019) Jerome Kelleher et al.   NATURE GENETICS

A method for genome-wide genealogy estimation for thousands of samples

(2019) Leo Speidel et al.   NATURE GENETICS

Inference of complex population histories using whole-genome sequences from multiple populations

(2019) Matthias Steinrücken et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Admixture between old lineages facilitated contemporary ecological speciation in Lake Constance stickleback

(2019) David A. Marques et al.   Nature Communications

Experimental evidence for rapid genomic adaptation to a new niche in an adaptive radiation

(2018) David A. Marques et al.   Nature Ecology & Evolution

Background selection and biased gene conversion affect more than 95% of the human genome and bias demographic inferences

(2018) Fanny Pouyet et al.   eLife

Approximate Bayesian Computation

(2018) Mark A. Beaumont   Annual Review of Statistics and Its Application

Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers

(2017) Martin Sikora et al.   SCIENCE

Minimal-assumption inference from population-genomic data

(2017) Daniel B Weissman et al.   eLife

Demographic modelling with whole-genome data reveals parallel origin of similarPundamiliacichlid species after hybridization

(2016) Joana I. Meier et al.   MOLECULAR ECOLOGY

A genomic history of Aboriginal Australia

(2016) Anna-Sapfo Malaspinas et al.   NATURE

Robust and scalable inference of population history from hundreds of unphased whole genomes

(2016) Jonathan Terhorst et al.   NATURE GENETICS

Chimpanzee genomic diversity reveals ancient admixture with bonobos

(2016) M. de Manuel et al.   SCIENCE

Worldwide Population Structure, Long-Term Demography, and Local Adaptation of Helicobacter pylori

(2015) Valeria Montano et al.   GENETICS

Worldwide Population Structure, Long-Term Demography, and Local Adaptation of Helicobacter pylori

(2015) Valeria Montano et al.   GENETICS

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

Robust Demographic Inference from Genomic and SNP Data

(2013) Laurent Excoffier et al.   PLoS Genetics

fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios

(2011) Laurent Excoffier et al.   BIOINFORMATICS

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

Bayesian inference of ancient human demography from individual genome sequences

(2011) Ilan Gronau et al.   NATURE GENETICS

ABCtoolbox: a versatile toolkit for approximate Bayesian computations

(2010) Daniel Wegmann et al.   BMC BIOINFORMATICS

ZUSAMMENSETZUNG VON POPULATIONEN UND KORRELATIONSERSCHEINUNGEN VOM STANDPUNKT DER VERERBUNGSLEHRE AUS BETRACHTET

(2010) STEN WAHLUND   HEREDITAS

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics