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rHVDM (version 1.38.0)

Hidden Variable Dynamic Modeling

Description

A R implementation of HVDM (Genome Biol 2006, V7(3) R25)

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Version

Version

1.38.0

License

GPL-2

Maintainer

Martino Barenco

Last Published

February 15th, 2017

Functions in rHVDM (1.38.0)

HVDMcheck

Checks that an object of class ExpressionSet is compliant with HVDM
screening.nl

Fits the optimal kinetic parameter values for several genes with a nonlinear model.
genestoscreen

Genes differentially expressed
twodosesMAS5

Example data for the rHVDM package (time course of irradiated human T cells, two different doses)
estimerrors

computes the standard deviation of the measurement error using pre-calculated tables specific to the plattform or user-defined table
fitgene.lin

Fits the optimal kinetic parameter values for a particular gene.
training.nl

Performs the HVDM training step and returns a list containing the results
fiveGyMAS5

Example data for the rHVDM package (time course of irradiated human T cells)
screening

Fits the optimal kinetic parameter values for several genes.
fitgene.nl

Fits the optimal kinetic parameter values for a particular gene and model.
fitgene

Fits the optimal kinetic parameter values for a particular gene.
p53traingenes

Known p53 targets
leastnoisychips

Identifiers of the three least noisy arrays in the p53 experiment
HVDMreport

generates an HTML report using the input
training

Performs the HVDM training step and returns a list containing the results
rHVDMplattforms

plattform-specific repository allowing to estimate measurement errors