set_module_weights

The 'network_module' object to modify.

module

A vector or matrix of weights for each connetions. If a vector,
its length must equal the number of connections in the module. If a matrix,
it should be square with the number of columns equal to the number of nodes
in the module; only the entries in the lower triangle that correspond to
connections in the module will be used.

weights

Internal function to set the connection weights for a module

Methods to generate random gene-gene association networks and simulate RNA-seq data from them, as described in Grimes and Datta (2021) <doi:10.18637/jss.v098.i12>. Includes functions to generate random networks of any size and perturb them to obtain differential networks. Network objects are built from individual, overlapping modules that represent pathways. The resulting network has various topological properties that are characteristic of gene regulatory networks. RNA-seq data can be generated such that the association among gene expression profiles reflect the underlying network. A reference RNA-seq dataset can be provided to model realistic marginal distributions. Plotting functions are available to visualize a network, compare two networks, and compare the expression of two genes across multiple networks.

set_module_weights: Internal function to set the connection weights for a module

Description

Usage

Arguments

Value