designGG (version 1.1)

variableNumber: Compute the number of variables in the experiment

Description

When nEnvFactors = 1 and nLevels = 1, there is no environmetal pertubation in the experimental. Then we re-define nEnvFactors to be 0 within the algorithm. nEnvFactors = 0, only genetic factor is considered. nEnvFactors > 1, genetic and environmental facotrs, and all possible interacting factors are considered.

Usage

variableNumber( nEnvFactors )

Arguments

nEnvFactors

number of environmental factors, an integer. When nEnvFactors is between 0 and 3, all main factors and interacting factors will be included.

Value

• nEnvFactors = 1, variableNumber = 3 (one genetic factor Q, one environmental factor F, and one interacting factor QxF) nEnvFactors = 2, variableNumber = 7 nEnvFactors = 3, variableNumber = 15

References

Y. Li, R. Breitling and R.C. Jansen. Generalizing genetical genomics: the added value from environmental perturbation, Trends Genet (2008) 24:518-524. Y. Li, M. Swertz, G. Vera, J. Fu, R. Breitling, and R.C. Jansen. designGG: An R-package and Web tool for the optimal design of genetical genomics experiments. BMC Bioinformatics 10:188(2009) http://gbic.biol.rug.nl/designGG

See Also

variableNames