get.model.parameters: get.model.parameters

In antagomir/netresponse: Functional Network Analysis

get.model.parameters

Description

Retrieve the mixture model parameters of the NetResponse algorithm for a given subnetwork.

Usage

get.model.parameters(model, subnet.id = NULL)

Arguments

model	Result from NetResponse (detect.responses function).
subnet.id	Subnet identifier. A natural number which specifies one of the subnetworks within the 'model' object.

Details

Only the non-empty components are returned. Note: the original data matrix needs to be provided for function call separately.

Value

A list with the following elements:

mu	Centroids for the mixture components. Components x nodes.
sd	Standard deviations for the mixture components. A vector over the nodes for each component, implying the diagonal covariance matrix of the model (i.e. diag(std^2)). Components x nodes
w	Vector of component weights.
nodes	List of nodes in the subnetwork.
K	Number of mixture components.

Author(s)

Leo Lahti [e-mail]

References

Leo Lahti et al.: Global modeling of transcriptional responses in interaction networks. Bioinformatics (2010). See citation('netresponse') for details.

Examples

# Load toy data
data( toydata )          # Load toy data set
D     <- toydata$emat    # Response matrix (for example, gene expression)
model <- toydata$model   # Pre-calculated model

# Get model parameters for a given subnet
# (Gaussian mixture: mean, covariance diagonal, mixture proportions)
get.model.parameters(model, subnet.id = 1)

antagomir/netresponse documentation built on March 30, 2023, 7:24 a.m.