sponge_network: Prepare a sponge network for plotting

In mlist/SPONGE: Sparse Partial Correlations On Gene Expression

Prepare a sponge network for plotting

Description

Prepare a sponge network for plotting

Usage

sponge_network(
  sponge_result,
  mir_data,
  target.genes = NULL,
  show.sponge.interaction = TRUE,
  show.mirnas = "none",
  min.interactions = 3
)

Arguments

sponge_result	ceRNA interactions as produced by the sponge method.
mir_data	miRNA interactions as produced by sponge_gene_miRNA_interaction_filter
target.genes	a character vector to select a subset of genes
show.sponge.interaction	whether to connect ceRNAs
show.mirnas	one of none, shared, all
min.interactions	minimum degree of a gene to be shown

Value

a list of nodes and edges

Examples

sponge_network(ceRNA_interactions, mir_interactions)

mlist/SPONGE documentation built on Feb. 12, 2023, 1:22 a.m.