mssumstats_old3: Takes output from microsimr or an empirical microsatellite...
In mastoffel/sealABC: useful functions for the abc pinniped analysis

Description Usage Arguments Examples

View source: R/mssumstats_old3.R

Takes output from microsimr or an empirical microsatellite dataset and outputs summary statistics

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mssumstats_old3(data, datatype = c("microsats", "microsimr"), by_pop = NULL,
  start_geno = NULL, mratio = c("strict", "loose"), rarefaction = FALSE,
  nsamp = NULL, nloc = NULL, nboot = 1000)

`data`	microsatellites, whereby every locus is represented by two adjacent columns. Or microsimr output.
`datatype`	defaults to "microsats" for allelic microsatellite format, "microsimr" for microsimr output
`by_pop`	name of population variable. If specified, all summary statistics will be calculated within populations
`start_geno`	integer, specifying the first column with genotypes. If now specified, all column are expected to be genotypes
`mratio`	defaults to "strict". if "loose", the mratio will be calculated differently, see ?m_ratio
`rarefaction`	if TRUE, calculates mean and sd number of alleles as mean of n_samp individuals and n_loc loci over n_boot bootstraps
`nsamp`	number of samples to subssample
`nloc`	number of loci to subsample
`nboot`	number of bootstraps

data(microsimr_data)
mssumstats(microsimr_data, datatype = "microsimr")

data(microsat_data)
mssumstats(microsat_data, datatype = "microsats")

data(fur_seal)
mssumstats(fur_seal, datatype = "microsats", by_pop = "pop", start_geno = 4)