A Simple Framework to Analyse Population and Landscape Genetic Data
Multiple Matrix Regression with Randomization analysis
Function to execute mutation on a pop data.frame
Checks for the presence of and determine the frequency of null alleles
Function for optimising a landscape genetic analysis based on resistan...
Function to calculate dispersal distances based on cost distances
Calculates pairwise fsts using a genind object (very fast)
Calculates proportion of shared alleles per pairs of populations
This is the main function of the package. It analyses an object of cla...
Function converts pops to a genind object
Function to convert textfiles into a genind object (the format require...
Function to execute reproduction on a pop data.frame
Run a time-forward popgen simulation
Spatial autocorrelation following Smouse and Pekall 1999
Function to add lines to landscape
Function to add a polygon to a landscape
Calculates the allelic richness for a genind object
Counts and visualises allele frequencies across loci and subpopulation...
Calculates cost distances for a given landscape (resistance matrix)
Function to execute emigration on a pops object
Individual genetic distance calculation based on Kosman & Leonhard 200...
Individual genetic distance calculation based on Smouse and Peakall 19...
Least-cost path analysis based on a friction matrix
Initialise a spatial meta-population for a popgen simulation
Create a landscape genetic report
Partial Mantel tests on costdistance matrices
Provides beginner friendly framework to analyse population genetic data. Based on 'adegenet' objects it uses 'knitr' to create comprehensive reports on spatial genetic data. For detailed information how to use the package refer to the comprehensive tutorials or visit <http://www.popgenreport.org/>.