Hidden Variable Dynamic Modeling


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Documentation for package ‘rHVDM’ version 1.42.0

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estimerrors computes the standard deviation of the measurement error using pre-calculated tables specific to the plattform or user-defined table
fitgene Fits the optimal kinetic parameter values for a particular gene.
fitgene.lin Fits the optimal kinetic parameter values for a particular gene.
fitgene.nl Fits the optimal kinetic parameter values for a particular gene and model.
fiveGyMAS5 Example data for the rHVDM package (time course of irradiated human T cells)
genestoscreen Genes differentially expressed
HVDMcheck Checks that an object of class ExpressionSet is compliant with HVDM
HVDMreport generates an HTML report using the input
leastnoisychips Identifiers of the three least noisy arrays in the p53 experiment
p53traingenes Known p53 targets
rHVDMplattforms plattform-specific repository allowing to estimate measurement errors
screening Fits the optimal kinetic parameter values for several genes.
screening.nl Fits the optimal kinetic parameter values for several genes with a nonlinear model.
training Performs the HVDM training step and returns a list containing the results
training.nl Performs the HVDM training step and returns a list containing the results
twodosesMAS5 Example data for the rHVDM package (time course of irradiated human T cells, two different doses)