addNonNulls             Add all non-NULL elements of list.
commaList2vector        Comma-separated string to numeric vector.
correlatedBgEffects     Simulate correlated background effects.
expGen2probGen          Rewrite expected genotypes into genotype
                        probabilities.
geneticBgEffects        Simulate infinitesimal genetic effects
                        (reflecting sample kinship).
geneticFixedEffects     Simulate genetic variant effects.
getAlleleFrequencies    Compute allele frequencies from genotype data.
getCausalSNPs           Draw random SNPs from genotypes.
getKinship              Get genetic kinship.
noiseBgEffects          Simulate observational noise effects.
noiseFixedEffects       Simulate noise fixed effects.
probGen2expGen          Compute expected genotypes from genotype
                        probabilities.
readStandardGenotypes   Read genotypes from file.
read_lines              Scan file for specific line numbers
rescaleVariance         Scale phenotype component.
runSimulation           Run phenotype simulation.
savePheno               Save final phenotype and phenotype components.
setModel                Set simulation model.
simulateDist            Data simulation for different distributions.
simulateGenotypes       Simulate bi-allelic genotypes.
simulatePhenotypes      Command line execution for PhenotypeSimulator.
standardiseGenotypes    Standardise genotypes.
testNumerics            Test lists for different properties of
                        numerics.
transformNonlinear      Phenotype transformation.
vmessage                Print userinfo.
writeStandardOutput     Write simulated data into formats used by
                        standard GWAS software.
