optimize.subset: Optimize PEVmean or CDmean

In UMN-BarleyOatSilphium/GSSimTPUpdate: Code and data to accompany the publication [TITLE]

Description

Optimize the PEVmean or CDmean using a subset (for faster computation) or the whole set of individuals.

Optimize PEVmean or CDmean

Usage

optimize.subset(method, A, n.training, phenotyped.index, unphenotyped.index,
  V_a, V_e, max.iter)

optimize.whole(method, A, n.training, phenotyped.index, unphenotyped.index, V_a,
  V_e, max.iter)

Arguments

method	optimization procedure. Can be "PEVmean" or "CDmean".
A	The n x n relationship matrix.
n.training	The target size of the training population.
phenotyped.index	The index of the "phenotyped" entries in the matrix A. This can be interpreted as the entries from which you wish to develop an optimized training population.
unphenotyped.index	The index of "unphenotyped" entries
V_a	The additive genetic variance
V_e	The residual variance
max.iter	The maximum number of iterations of the exhange algorithm

Functions

• optimize.whole:

UMN-BarleyOatSilphium/GSSimTPUpdate documentation built on May 9, 2019, 7:40 p.m.