sponge_network: Prepare a sponge network for plotting

In SPONGE: Sparse Partial Correlations On Gene Expression

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)

SPONGE documentation built on Nov. 8, 2020, 5:39 p.m.