MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies

Clear: Composition of Likelihoods for Evolve and Resequence Experiments

(2017) Arya Iranmehr et al.   GENETICS

Quantifying Selection with Pool-Seq Time Series Data

(2017) Thomas Taus et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recombination Alters the Dynamics of Adaptation on Standing Variation in Laboratory Yeast Populations

(2017) Katya Kosheleva et al.   MOLECULAR BIOLOGY AND EVOLUTION

Clear: Composition of Likelihoods for Evolve and Resequence Experiments

(2017) Arya Iranmehr et al.   GENETICS

Reconstruction of Haplotype-Blocks Selected during Experimental Evolution

(2016) Susanne U. Franssen et al.   MOLECULAR BIOLOGY AND EVOLUTION

SLiM 2: Flexible, Interactive Forward Genetic Simulations

(2016) Benjamin C. Haller et al.   MOLECULAR BIOLOGY AND EVOLUTION

Gaussian process test for high-throughput sequencing time series: application to experimental evolution

(2015) Hande Topa et al.   BIOINFORMATICS

Power Analysis of Artificial Selection Experiments Using Efficient Whole Genome Simulation of Quantitative Traits

(2015) Darren Kessner et al.   GENETICS

Elucidating the molecular architecture of adaptation via evolve and resequence experiments

(2015) Anthony Long et al.   NATURE REVIEWS GENETICS

Multi-locus Analysis of Genomic Time Series Data from Experimental Evolution

(2015) Jonathan Terhorst et al.   PLoS Genetics

Power Analysis of Artificial Selection Experiments Using Efficient Whole Genome Simulation of Quantitative Traits

(2015) Darren Kessner et al.   GENETICS

Combining experimental evolution with next-generation sequencing: a powerful tool to study adaptation from standing genetic variation

(2014) C Schlötterer et al.   HEREDITY

The Power to Detect Quantitative Trait Loci Using Resequenced, Experimentally Evolved Populations of Diploid, Sexual Organisms

(2014) James G. Baldwin-Brown et al.   MOLECULAR BIOLOGY AND EVOLUTION

Sequencing pools of individuals — mining genome-wide polymorphism data without big funding

(2014) Christian Schlötterer et al.   NATURE REVIEWS GENETICS

forqs: forward-in-time simulation of recombination, quantitative traits and selection

(2013) Darren Kessner et al.   BIOINFORMATICS

Statistical questions in experimental evolution

(2013) Michael M Desai   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

A Guide for the Design of Evolve and Resequencing Studies

(2013) Robert Kofler et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary Biology for the 21st Century

(2013) Jonathan B. Losos et al.   PLOS BIOLOGY

FFPopSim: an efficient forward simulation package for the evolution of large populations

(2012) Fabio Zanini et al.   BIOINFORMATICS

GENOMIC BASIS OF AGING AND LIFE-HISTORY EVOLUTION INDROSOPHILA MELANOGASTER

(2012) Silvia C. Remolina et al.   EVOLUTION

Adaptation ofDrosophilato a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles

(2012) PABLO OROZCO-terWENGEL et al.   MOLECULAR ECOLOGY

The Drosophila melanogaster Genetic Reference Panel

(2012) Trudy F. C. Mackay et al.   NATURE

The Many Landscapes of Recombination in Drosophila melanogaster

(2012) Josep M. Comeron et al.   PLoS Genetics

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)

(2011) R. Kofler et al.   BIOINFORMATICS

ART: a next-generation sequencing read simulator

(2011) Weichun Huang et al.   BIOINFORMATICS

Population-Based Resequencing of Experimentally Evolved Populations Reveals the Genetic Basis of Body Size Variation in Drosophila melanogaster

(2011) Thomas L. Turner et al.   PLoS Genetics

Adaptation – not by sweeps alone

(2010) Jonathan K. Pritchard et al.   NATURE REVIEWS GENETICS

Adaptation genomics: the next generation

(2010) Jessica Stapley et al.   TRENDS IN ECOLOGY & EVOLUTION

quantiNemo: an individual-based program to simulate quantitative traits with explicit genetic architecture in a dynamic metapopulation

(2008) S. Neuenschwander et al.   BIOINFORMATICS