Man pages for MetaboSignal
MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways
| directionality_reactions | List of KEGG reactions with incorrect/inconsistent... |
| hpaNormalTissue | Expression profiles for proteins in human tissues |
| keggNet_example | KEGG network example |
| kegg_pathways | Examples of metabolic and signaling human KEGG pathways |
| mergedNet_example | Network containing KEGG, OmniPath and TRRUST interactions |
| MetaboSignal_table | Example of MetaboSignal network-table |
| MS2_mergeNetworks | Merge networks |
| MS2_ppiNetwork | Build signaling-transduction network |
| MS_changeNames | Transform KEGG IDs into common names |
| MS_convertGene | Transform Entrez IDs or gene symbols into KEGG IDs |
| MS_distances | Calculate gene-metabolite distance matrix |
| MS_exportCytoscape | Export network in cytoscape format |
| MS_findMappedNodes | Map gene IDs or metabolite IDs onto the network |
| MS_getPathIds | Get pathway identifiers of a given organism |
| MS_keggFinder | Get KEGG IDs for compounds, organisms or pathways |
| MS_keggNetwork | Build MetaboSignal network-table |
| MS_nodeBW | Get distribution of node betweeness |
| MS_reactionNetwork | Build reaction-compound network |
| MS_removeDrugs | Remove edges containing drug nodes |
| MS_removeNode | Remove undesired nodes from the network |
| MS_replaceNode | Replace nodes of the network |
| MS_shortestPaths | Calculate shortest paths |
| MS_shortestPathsNetwork | Build shortest-path subnetwork |
| MS_tissueFilter | Filter network based on tissue expression data |
| MS_topologyFilter | Filter network based on distances or betweenness |
| ppiNet_example | Signaling-transduction network |
| regulatory_interactions | Regulatory interactions from OmniPath and TRRUST |
