mpadd: Add markers onto an existing 'mpcross' object

In mpMap: Multi-parent RIL genetic analysis

Description

If the 'mpcross' object contains only genotypes and pedigree, the markers are added to the genotypes after some format checking. If the 'mpcross' object contains estimated recombination fractions and LOD scores, the markers are added in after estimating recombination fractions with the existing markers. If the 'mpcross' object contains a map, the markers are added onto the map using 3-point mapping.

Usage

  mpadd(mpcross1, mpcross2, r, theta = 0.15, LOD = 5,
    mapfx = c("haldane", "kosambi"))

Arguments

mpcross1	Original object of class mpcross
mpcross2	Additional object of class mpcross
r	Grid of recombination fractions over which to maximize likelihood
theta	Threshold for recombination fractions used in constructing linkage groups
LOD	Threshold for LOD scores used in constructing linkage groups
mapfx	Map function for converting recombination distances to map distances

Value

Object of class 'mpcross' which is of the same stage as the first object. Recombination fractions and linkage groups will be recomputed after adding in the markers in the second object if necessary.

See Also

mpestrf, mpgroup, mpcross

mpMap documentation built on May 29, 2017, 2:50 p.m.