interactionLevel: Generate levels for all interacting factors

Description

Generate levels for all interacting factors for all RILs (or strains). This is a subfunction needed for designScore, but is not directly used.

Usage

interactionLevel( genotype.level, condition.level, markerIndex, 
                    nEnvFactors )

Arguments

genotype.level

levels of genetic factor for each RIL (or strain) in the experiment.

condition.level

levels of all environmental factors for each RIL (or strain)in the experiment.

markerIndex

indicate which genome position that level of genetic factor corresponds to.

nEnvFactors

number of environmental factors, an integer bewteen 1 and 3. When nEnvFactors is 1 and the number of levels for the enviromental factor (nLevels)is 1, there is one condition in the experiment (i.e. no envir

Value

a matrix with nRILs rows. The number columns depends on nEnvFactors. For example: If nEnvFactors = 1, there is only one interaction term. If nEnvFactors = 2, there are three pair-wise two-way interaction terms and one three-way interaction term.

Details

markerIndex indicates the genome position that genotype.level corresponds to. An experiment design is defined to be optimal over all markers if the sum of scores, e.g. A-optimality criterion over all markers is minimized.

References