Preview network in browser

Generates a temporary HTML file for the network visualization and opens it in the default web browser for quick preview.

Usage

previewNetworkInBrowser(
  nodes,
  edges,
  displayLabelType = "id",
  nodeFontSize = 12
)

Arguments

nodes

Data frame with at minimum an id column. Optional columns: logFC (numeric), entity_name (character; may be semicolon-joined for multi-grounded rows), entity_id (character), site (character, underscore-separated PTM site list), and the node status columns of validate_network(): entity_type sets the node shape (e.g. a hexagon for "metabolite"); measured = FALSE draws a node with no fill and a dashed grey border ("not in input data"); included_in_query = FALSE fades it. A node with an NA logFC has no fill. A protein with site rows takes its colour from its row with no site; without one, only its sites are coloured. Missing status columns count as TRUE.

edges

Data frame with columns source, target, interaction. Optional: directed (an edge with FALSE has no arrow and is drawn once for both directions; without the column, Complex and Association edges are undirected), site, evidence_url, opened when an edge is clicked.

displayLabelType

"id" (default) or "entity_name": which column is used as the visible node label. "entityName" is deprecated and is treated as "entity_name" with a warning.

nodeFontSize

Font size (px) for node labels. Default 12.

Value

Invisibly returns the file path of the temporary HTML file.

Examples

if (FALSE) { # \dontrun{
nodes <- data.frame(id = c("A", "B", "C"))
edges <- data.frame(source = c("A", "B"), target = c("B", "C"))
previewNetworkInBrowser(nodes, edges)
} # }