edge_types: Resulting network definition

In anna-pacinkova/intomics_package: Integrative analysis of multi-omics data to infer regulatory networks

Resulting network definition

Description

edge_types Defines the resulting network structure and determines the color scale for each modality. This is part of trace_plots.

Usage

edge_types(
  mcmc_res,
  PK,
  gene_annot,
  edge_list,
  node_list,
  OMICS_mod_res,
  edge_weights,
  TFtargs
)

Arguments

mcmc_res	list output from the BN_module function.
PK	data.frame with known interactions.
gene_annot	data.frame containing the entrez ID and corresponding gene symbol for conversion.
edge_list	matrix indicating the interaction between nodes, the first column indicates the source node, the second column indicates the target node.
node_list	character vector indicating the complete set of nodes in the resulting network structure.
OMICS_mod_res	list output from the OMICS_module function.
edge_weights	character vector includes either "MCMC_freq" to reflect the edge weights frequency over the final set of network structures or "empB" to reflect the empirical biological knowledge estimated by IntOMICS.
TFtargs	matrix containing the direct interactions between TFs (columns) and their targets (rows).

Value

List of 6 elements needed to plot the final regulatory network edges

anna-pacinkova/intomics_package documentation built on Aug. 13, 2022, 11:38 a.m.