estimateDecayRates: Estimate Decay Rates

In tianyu-lu/dynUGENE: Dynamical Uncertainty-aware GEne NEtwork inference with random forests

Description

Code adapted from dynGENIE3. For each gene, the decay rate is estimated by assuming that the gene expression x(t) follows: x(t) = A exp(-alpha * t) + cMin, between the highest and lowest expression values. cMin is set to the minimum expression value over all genes and all samples.

Usage

estimateDecayRates(data)

Arguments

data	The data.frame provided as input to inferNetwork(). Refer to the data parameter in inferNetwork() for more details.

Value

Returns a vector of estimated decay rates for each gene.

References

Geurts, P. (2018). dynGENIE3: dynamical GENIE3 for the inference of gene networks from time series expression data. Scientific reports, 8(1), 1-12.

Examples

## Not run: 
alphas <- estimateDecayRates(Repressilator)

## End(Not run)

tianyu-lu/dynUGENE documentation built on Jan. 7, 2021, 6:27 p.m.