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Geneland (version 4.0.6)

Detection of Structure from Multilocus Genetic Data

Description

Stochastic simulation and MCMC inference of structure from genetic data.

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Version

Install

install.packages('Geneland')

Monthly Downloads

371

Version

4.0.6

License

GPL

Maintainer

Gilles Guillot

Last Published

September 1st, 2016

Functions in Geneland (4.0.6)

Geneland.GUI

Graphical interface for package Geneland
Fstat

Computes F statistics on a population genetics dataset given as R object
Fstat.output

Computes F statistics on the output of an inference by MCMC simulation
coordinates

Example of coordinate file
FormatGenotypes

Formatting file of genotype data.
gl2gp

Geneland to Genepop conversion
EstimateFreqNA

Estimate frequencies of null alleles.
genotypes

Example of coordinate file
HZ

Estimate parameters of the hybrid zone model by MCMC simulation
Geneland-package

Simulation and inference for subdivided populations
PlotDrift

Plot the drift factors
PlotFreqA

Plots allele frequencies in ancestral population along the MCMC run and optionally prints it
PlotFreq

Plot the trace of allele frequencies in present time population and optionnaly print it.
Plotnpop

Plot of number of populations along the MCMC run
PlotTessDyn

Plot tessellation along an MCMC run.
PlotTessellation

Maps of posterior probability of membership
Plotntile

Plot of number of tiles along the MCMC run
nullify

Simulates null alleles
PosteriorMode

Map of mode of posterior distribution of population membership
MCMC

Markov Chain Monte-Carlo inference of clusters from genotpype data
show.simdata

Graphical display of data simulated by simdata
PostProcessChain

Computation for maps of posterior probability of population membership
simFmodel

Simulation of multi-locus genetic data from the spatial F-model
show.estimate.hz

Show estimate of parameters of the hybrid zone model by MCMC simulation
simdata

Simulation of georeferenced genotypes under an IBD + barrier model