get_signed_ptms: get signs for ptms interactions

In OmnipathR: OmniPath web service client

Description

ptms data does not contain sign (activation/inhibition), we generate this information based on the interaction network

Usage

get_signed_ptms(
  ptms = import_omnipath_enzsub(),
  interactions = import_omnipath_interactions()
)

Arguments

ptms	ptms data frame generated by import_omnipath_enzsub
interactions	interaction data frame generated by import_omnipath_interactions

Value

data.frame of ptms with is_inhibition and is_stimulation columns

See Also

import_omnipath_enzsub import_omnipath_interactions

Examples

ptms = import_omnipath_enzsub(resources=c("PhosphoSite", "SIGNOR"))
interactions = import_omnipath_interactions()
ptms = get_signed_ptms(ptms,interactions)

OmnipathR documentation built on Nov. 8, 2020, 8:10 p.m.