Function to execute mutation on a pop data.frame
Calculates proportion of shared alleles per pairs of populations
Checks for the presence of and determine the frequency of null alleles
Create a landscape genetic report
Calculates pairwise fsts using a genind object (very fast)
Multiple Matrix Regression with Randomization analysis
Initialise a spatial meta-population for a popgen simulation
A simulated genind data set with spatial coordinates
Function to calculate dispersal distances based on cost distances
Function for optimising a landscape genetic analysis based on resistance layers
Spatial autocorrelation following Smouse and Pekall 1999
This is the main function of the package. It analyses an object of class
genind and then creates a report containing the results of the
analysis. There are several routines that can be optionally included in the
analysis and there are multiple output options including a PDF with the
report, R-code and an object (fname.results) containing all of the
results, which can be used for further analyses.
Function to convert textfiles into a genind object (the format
required for popgenreport)
Function to execute reproduction on a pop data.frame
Run a time-forward popgen simulation
A genlight object created via the read.genetable functions [possum data set from Sarre et al. 2015]
Function converts pops to a genind object
Partial Mantel tests on costdistance matrices
Bilby data set
Function to execute emigration on a pops object
Calculates cost distances for a given landscape (resistance matrix)
Individual genetic distance calculation based on Smouse and Peakall 1999
Calculates the allelic richness for a genind object
Counts and visualises allele frequencies across loci and subpopulations
Function to add lines to landscape
Function to add a polygon to a landscape
Individual genetic distance calculation based on Kosman & Leonhard 2005
Least-cost path analysis based on a friction matrix