See what is going on 'under the hood' of KEGG pathways by explicitly re-creating the pathway maps from information obtained from KGML files.
|Date of publication||None|
|Maintainer||Shana White <firstname.lastname@example.org>|
add_edge_data: Annotate KEGG edge mappings with user data
cyto_vis: Send graph to Cytoscape via CyREST
edge_mapping_info: Prepare edges for mapping
expand_KEGG_edges: Get detailed KEGG mapping information for each relation...
expand_KEGG_mappings: Get detailed KEGG mapping information for each map entity
generate_mappings: The 'boilerplate' for this package's desired graph style
get_fisher_info: Perform Fisher's Exact test for edges in pathway
get_graph_object: Generate graph object from nodes and edges
get_KGML: Download and parse KGML file
KEGGlincs: KEGGlincs: an R package designed to explore the edges in KEGG...
KEGG_lincs: Combines all other package functions for one-step pathway...
node_mapping_info: Prepare nodes for mapping
overlap_info: Get overlap information for pairs of gene knock-outs from...
path_genes_by_cell_type: See how many pathway gene knock-outs are available from data
refine_mappings: Refine pathway by cell type
toCytoscape: cyREST utility functions