Pathways from the NCI Pathways Database

Documentation for package ‘NCIgraph’ version 1.24.0

directedBFS	Uses a breadth first search on a directed graph to identify which genes are regulated by a particular node in the graph
edgesToMerge	Identifies edges that should be merged to parse a NCI network
getNCIPathways	Loads networks from Cytoscape and parses them
getSubtype.NCIgraph	Returns a list of @KEGGEdgeSubType objects describing each edge of the NCI network
is.NCIgraph	Assess whether a graph is a NCI graph
mergeNodes	Merges a given list of nodes in a graph
NCI.demo.cyList	10 raw NCI networks from Nature curated pathways and BioCarta imported as graphNEL objects, for demonstration purpose
NCIgraph-class	Class NCIgraph
parseNCInetwork	Takes a NCI network and transforms it into a simpler graph only representing inhibition/activation relationships between genes
propagateRegulation	Transforms the network in a way that each Biochemical Reaction node pointing to a Complex points to what is regulated by the complex and updates the interaction types accordingly
translateNCI2GeneID	Gives the entrezID corresponding to the nodes of a graph