get.subnets-NetResponseModel-method: get.subnets

In antagomir/netresponse: Functional Network Analysis

get.subnets

Description

List the detected subnetworks (each is a list of nodes in the corresponding subnetwork).

Usage

## S4 method for signature 'NetResponseModel'
get.subnets(
  model,
  get.names = TRUE,
  min.size = 2,
  max.size = Inf,
  min.responses = 2
)

Arguments

model	Output from the detect.responses function. An object of NetResponseModel class.
get.names	Logical. Indicate whether to return subnetwork nodes using node names (TRUE) or node indices (FALSE).
min.size, max.size	Numeric. Filter out subnetworks whose size is not within the limits specified here.
min.responses	Numeric. Filter out subnetworks with less responses (mixture components) than specified here.

Value

A list of subnetworks.

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 a pre-calculated netresponse model obtained with 
# model <- detect.responses(toydata$emat, toydata$netw, verbose = FALSE)
# data( toydata ); get.subnets(toydata$model) 

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