exportColony: write a Colony input file.

In delomast/EFGLmh: Functions For Working With Microhaps for EFGL

write a Colony input file.

Description

write a Colony input file.

Usage

exportColony(
  x,
  filename = "colony2.dat",
  pops = NULL,
  loci = NULL,
  candMales = NULL,
  candFemales = NULL,
  candMaleProb = NULL,
  candFemaleProb = NULL,
  projName = "efglmhToColony",
  colOutFileName = "colonyResults",
  alleleDropoutRate = 0.01,
  otherGenotypingErrorRate = 0.01
)

Arguments

x	an EFGLdata object
filename	the name of the file to write. If NULL, the colony input is returned as a character vector with each line a separate entry in the vector.
pops	a vector of pops to include. If not specified, all pops are used.
loci	a vector of loci to include. If not specified, all loci are used.
candMales	candidate male names
candFemales	candidate female names
candMaleProb	probability father is included in candidate males. if NULL, either 0 or 0.5 depending on whether candMales is NULL.
candFemaleProb	probability father is included in candidate Females. if NULL, either 0 or 0.5 depending on whether candFemales is NULL.
projName	project name in colony input
colOutFileName	output file name to direct colony to use
alleleDropoutRate	allelic dropout rate to use for all loci
otherGenotypingErrorRate	other genotyping error rate to use for all loci

Value

nothing, just writes a file

delomast/EFGLmh documentation built on June 1, 2024, 6:55 a.m.