Computer simulations: tools for population and evolutionary genetics
Computer simulations are excellent tools for understanding the evolutionary and genetic
consequences of complex processes whose interactions cannot be analytically predicted …
consequences of complex processes whose interactions cannot be analytically predicted …
Efficient ancestry and mutation simulation with msprime 1.0
Stochastic simulation is a key tool in population genetics, since the models involved are
often analytically intractable and simulation is usually the only way of obtaining ground-truth …
often analytically intractable and simulation is usually the only way of obtaining ground-truth …
Efficient coalescent simulation and genealogical analysis for large sample sizes
J Kelleher, AM Etheridge… - PLoS computational …, 2016 - journals.plos.org
A central challenge in the analysis of genetic variation is to provide realistic genome
simulation across millions of samples. Present day coalescent simulations do not scale well …
simulation across millions of samples. Present day coalescent simulations do not scale well …
OpenMendel: a cooperative programming project for statistical genetics
Statistical methods for genome-wide association studies (GWAS) continue to improve.
However, the increasing volume and variety of genetic and genomic data make …
However, the increasing volume and variety of genetic and genomic data make …
SLiM: simulating evolution with selection and linkage
PW Messer - Genetics, 2013 - academic.oup.com
SLiM is an efficient forward population genetic simulation designed for studying the effects of
linkage and selection on a chromosome-wide scale. The program can incorporate complex …
linkage and selection on a chromosome-wide scale. The program can incorporate complex …
[PDF][PDF] Coalescent simulation with msprime
J Kelleher, K Lohse - Statistical Population Genomics, 2020 - library.oapen.org
Coalescent simulation is a fundamental tool in modern population genetics. The msprime
library provides unprecedented scalability in terms of both the simulations that can be …
library provides unprecedented scalability in terms of both the simulations that can be …
Simulation of molecular data under diverse evolutionary scenarios
M Arenas - PLoS computational biology, 2012 - journals.plos.org
This study is intended for evolutionary biologists interested in strategies for the simulation of
molecular data under diverse evolutionary scenarios. It begins with a brief background on …
molecular data under diverse evolutionary scenarios. It begins with a brief background on …
Demes: a standard format for demographic models
Understanding the demographic history of populations is a key goal in population genetics,
and with improving methods and data, ever more complex models are being proposed and …
and with improving methods and data, ever more complex models are being proposed and …
Simulation of genes and genomes forward in time
A Carvajal-Rodríguez - Current genomics, 2010 - ingentaconnect.com
The importance of simulation software in current and future evolutionary and genomic
studies is just confirmed by the recent publication of several new simulation tools. The …
studies is just confirmed by the recent publication of several new simulation tools. The …
Next generation analytic tools for large scale genetic epidemiology studies of complex diseases
LE Mechanic, HS Chen, CI Amos… - Genetic …, 2012 - Wiley Online Library
Over the past several years, genome‐wide association studies (GWAS) have succeeded in
identifying hundreds of genetic markers associated with common diseases. However, most …
identifying hundreds of genetic markers associated with common diseases. However, most …