Computational tool for designing genetical genomics experiments.

Documentation for package ‘designGG’ version 1.1

acceptanceProbability	Compute the acceptance probability for each updated design
arrayUpdate	Update array allocation
conditionAllocation	Allocate the selected RILs into different conditions
conditionCombination	Generate a matrix indicating all possible levels for environmental factors
conditionLevel	Levels of all environmental factors
conditionUpdate	Update condition allocation
design genetical genomics experiment	Optimal design for genetical genomics experiments
designGG	Optimal design for genetical genomics experiments
designScore	Calculate the A- or D- optimality score based on current experimental design
exampleArrayDesignTable	Example output of ArrayDesignTable data
exampleConditionDesignTable	Example ConditionDesignTable data
examplePlotObj	Example PlotObj data
experimentDesignTable	Make experiment table based design matrix
genotype	Example genotype data
initialDesign	Initialize an experiment design matrix
interactionLevel	Generate levels for all interacting factors
pairLevel	Pair levels for paired RILs (or strains)
plotAllScores	Plot scores profiles
temperatureStep	Calculate the temperature decreasing step for simulated annealing process
updateDesign	Updates current design
variableNames	Generate variable names for all factors
variableNumber	Compute the number of variables in the experiment