Import Omnipath network


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Documentation for package ‘OmnipathR’ version 1.2.1

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get_annotation_databases Get the different annotation databases integrated in Omnipath
get_complexes_databases Get the different complexes databases integrated in Omnipath
get_complex_genes Get all the molecular complexes for a given gene(s)
get_interaction_databases Get the different interaction databases
get_intercell_categories Get the different intercell categories described in Omnipath
get_intercell_classes Get the different intercell main classes described in Omnipath
get_ptms_databases Get Post-translational modification (PTMs) databases
get_signed_ptms get signs for ptms interactions
import_AllInteractions Imports from Omnipath webservice all the available interactions from the different datasets
import_KinaseExtra_Interactions Imports from Omnipath webservice the interactions from kinaseextra dataset
import_LigrecExtra_Interactions Imports from Omnipath webservice the interactions from ligrecextra dataset
import_miRNAtarget_Interactions Imports from Omnipath webservice the interactions from miRNAtarget dataset
import_Omnipath_annotations Import Omnipath Annotations
import_Omnipath_complexes Import Omnipath Complexes
import_Omnipath_Interactions Import Omnipath interaction database
import_Omnipath_intercell Import Omnipath Intercell Data
import_Omnipath_PTMS Import Omnipath post-translational modifications (PTMs)
import_PathwayExtra_Interactions Imports from Omnipath webservice the interactions from Pathwayextra dataset
import_TFregulons_Interactions Imports from Omnipath webservice the interactions from Dorothea dataset
interaction_graph Build Omnipath interaction graph
OmnipathR The OmnipathR package
printPath_es print network paths given by edge sequence
printPath_vs print networks paths given by node sequence
print_interactions print interactions
ptms_graph Post-translational modifications (PTMs) graph