Weighting protein-protein interactions


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Documentation for package ‘wppi’ version 1.2.0

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common_neighbors Shared neighbors of connected vertices
count_genes Number of total genes in an ontology database
filter_annot_with_network Filter ontology datasets using PPI network object
functional_annot Functional similarity score based on ontology
graph_from_op Igraph object from OmniPath network
in_omnipath Check which genes of interest are or not in OmniPath
prioritization_genes Candidate genes prioritization
process_annot Processing of ontology annotations
random_walk Random Walk with Restart (RWR)
score_candidate_genes_from_PPI The full WPPI workflow
subgraph_op Extract PPI subgraph by genes of interest
weighted_adj Weighted adjacency matrix
wppi The wppi package
wppi_data Database knowledge for wppi
wppi_go_data Retrieves data from Gene Ontology (GO)
wppi_hpo_data Retrieves data from Human Phenotype Ontology (HPO)
wppi_omnipath_data Protein-protein interaction data from OmniPath