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| convert_ensembl_to_entrezid | convert gene ensembl to entrez id |
| convert_genesymbols_to_entrezid | convert gene symbols to entrez id |
| cosmos_data | Create Cosmos Data |
| default_CARNIVAL_options | Setting Default CARNIVAL Options |
| display_node_neighboorhood | display_node_neighboorhood |
| format_COSMOS_res | format_COSMOS_res |
| load_tf_regulon_dorothea | load transcription factor regulon |
| load_tf_regulon_dorothea_omnipath | load_tf_regulon_dorothea_omnipath |
| metabolite_to_pubchem | Metabolite-PubChem CID Mapping |
| meta_network | Meta Prior Knowledge Network |
| omnipath_ptm | OmniPath PTMs |
| prepare_metabolomics_data | format COSMOS metabolic input |
| preprocess_COSMOS_metabolism_to_signaling | Preprocess COSMOS Inputs For Metabolism to Signaling |
| preprocess_COSMOS_signaling_to_metabolism | Preprocess COSMOS Inputs For Signaling to Metabolism |
| print.cosmos_data | Print Cosmos Data Summary Print a summary of cosmos data. |
| run_COSMOS_metabolism_to_signaling | run COSMOS metabolism to signaling |
| run_COSMOS_signaling_to_metabolism | run COSMOS signaling to metabolism |
| toy_metabolic_input | Toy Metabolic Input Data |
| toy_network | Toy Input Network |
| toy_RNA | Toy Input Transcription Data Set |
| toy_signaling_input | Toy Signaling Input |