Approximate Bayesian Computation with Pooled Sequencing Data

Provides functions to simulate Pool-seq data under models of demographic formation and to import Pool-seq data from real populations. Implements two ABC algorithms for performing parameter estimation and model selection using Pool-seq data. Cross-validation can also be performed to assess the accuracy of ABC estimates and model choice. Carvalho et al., (2022) .

poolABC

The goal of poolABC is to help users perform model choice and parameter inference using Pool-seq data integrated into an Approximate Bayesian Computation (ABC) framework. This package provides functions to simulate Pool-seq data under models of ecotype formation and to import Pool-seq data from real populations. Two ABC algorithms are implemented to perform parameter estimation and model selection using Pool-seq data. Cross-validation can also be performed to assess the accuracy of ABC estimates and calculate model misclassification.

Installation

You can install the development version of poolABC from GitHub with:

# install.packages("devtools")
devtools::install_github("joao-mcarvalho/poolABC")

Alternatively, you can install the current stable version of poolABC from CRAN:

install.packages("poolABC")