new_ggraph: Generate a graphical representation of pathway gene maps

In TransProR: Analysis and Visualization of Multi-Omics Data

Generate a graphical representation of pathway gene maps

Description

This function merges multiple gene-pathway related dataframes, processes them for graph creation, and visualizes the relationships in a dendrogram layout using the provided node and edge gathering functions from the 'ggraph' package.

Usage

new_ggraph(
  BP_dataframe,
  BP_ids,
  KEGG_dataframe,
  KEGG_ids,
  MF_dataframe,
  MF_ids,
  REACTOME_dataframe,
  REACTOME_ids,
  CC_dataframe,
  CC_ids,
  DO_dataframe,
  DO_ids
)

Arguments

BP_dataframe	Dataframe for Biological Process.
BP_ids	IDs for Biological Process.
KEGG_dataframe	Dataframe for KEGG pathways.
KEGG_ids	IDs for KEGG pathways.
MF_dataframe	Dataframe for Molecular Function.
MF_ids	IDs for Molecular Function.
REACTOME_dataframe	Dataframe for REACTOME pathways.
REACTOME_ids	IDs for REACTOME pathways.
CC_dataframe	Dataframe for Cellular Component.
CC_ids	IDs for Cellular Component.
DO_dataframe	Dataframe for Disease Ontology.
DO_ids	IDs for Disease Ontology.

Value

A 'ggraph' object representing the pathway gene map visualization.

TransProR documentation built on April 4, 2025, 3:16 a.m.