newMarker: Internal marker constructor

In pedtools: Creating and Working with Pedigrees and Marker Data

Internal marker constructor

Description

This is the internal constructor of marker objects. It does not do any input validation and should only be used in programming scenarios, and only if you know what you are doing. Most users are recommended to use the regular constructor marker().

Usage

newMarker(
  alleleMatrixInt,
  alleles,
  afreq,
  name = NA_character_,
  chrom = NA_character_,
  posMb = NA_real_,
  mutmod = NULL,
  pedmembers,
  sex
)

Arguments

alleleMatrixInt	An integer matrix.
alleles	A character vector.
afreq	A numeric vector.
name	A character of length 1.
chrom	A character of length 1.
posMb	A numeric of length 1.
mutmod	A mutation model.
pedmembers	A character vector.
sex	An integer vector.

Details

See marker() for more details about the marker attributes.

Value

A marker object.

Examples

newMarker(matrix(c(1L, 0L, 1L, 1L, 0L, 2L), ncol = 2),
          alleles = c("A", "B"), afreq = c(0.1, 0.9), name = "M",
          pedmembers = c("1", "2", "3"), sex = c(1L, 2L, 1L))

pedtools documentation built on Nov. 5, 2023, 5:06 p.m.