get_graph_object {KEGGlincs} | R Documentation |
Obtain a graph object in the form of an igraph with KEGG-specific graphical information
get_graph_object(node_mapping_info, expanded_edges, layered_nodes = FALSE)
node_mapping_info |
The data.frame object generated by the function node_mapping_info() |
expanded_edges |
The data.frame object generated by the function edge_mapping_info() |
layered_nodes |
A logical indicator; if set to TRUE will create a graph with 'stacked' nodes that the user can manipulate when multiple nodes are mapped to one location |
A list object with the node and edge information from the graph required for mapping.
p53_KGML <- get_KGML("hsa04115") p53_KEGG_mappings <- expand_KEGG_mappings(p53_KGML) p53_node_mapping_info <- node_mapping_info(p53_KEGG_mappings) p53_edge_mapping_info <- expand_KEGG_edges(p53_KGML, p53_KEGG_mappings) #Default graph object will have 'expanded edges': expanded_edges_graph_object <- get_graph_object(p53_node_mapping_info, p53_edge_mapping_info) #Graph with layered nodes: layered_nodes_graph_object <- get_graph_object(p53_node_mapping_info, p53_edge_mapping_info, layered_nodes = TRUE)