bootgen2genind: Switch between genind and genclone objects.

Description

as.genclone will create a genclone object from a genind object OR anything that can be passed to the genind initializer.

Usage

bootgen2genind(bg)
as.genclone(x, ..., mlg, mlgclass = TRUE)
genclone2genind(x)
as.genambig(x)

Arguments

bg: a bootgen object
x: a genind or genclone object
...: arguments passed on to the genind constructor
mlg: an optional vector of multilocus genotypes as integers
mlgclass: should the mlg slot be of class MLG?

Author

Zhian N. Kamvar

Details

genclone2genind will remove the mlg slot from the genclone object, creating a genind object.

as.genambig will convert a genind or genclone object to a polysat genambig class.

Examples

Run this code

data(Aeut)
Aeut

# Conversion to genclone --------------------------------------------------
Aeut.gc <- as.genclone(Aeut)
Aeut.gc

# Conversion to genind ----------------------------------------------------
Aeut.gi <- genclone2genind(Aeut.gc)
Aeut.gi

# Conversion to polysat's "genambig" class --------------------------------
if (require("polysat")) {
  data(Pinf)
  Pinf.gb <- as.genambig(Pinf)
  summary(Pinf.gb)
}

data(nancycats)

# Conversion to bootgen for random sampling of loci -----------------------
nan.bg  <- new("bootgen", nancycats[pop = 9])
nan.bg

# Conversion back to genind -----------------------------------------------
nan.gid <- bootgen2genind(nan.bg)
nan.gid