get_signed_ptms: Signs for enzyme-substrate interactions

In saezlab/OmnipathR: OmniPath web service client and more

Signs for enzyme-substrate interactions

Description

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

Usage

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

Arguments

enzsub	Enzyme-substrate data frame generated by import_omnipath_enzsub
interactions	interaction data frame generated by import_omnipath_interactions

Value

Data frame of enzyme-substrate relationships with is_inhibition and is_stimulation columns.

See Also

• import_omnipath_enzsub

• import_omnipath_interactions

Examples

enzsub <- import_omnipath_enzsub(resources = c('PhosphoSite', 'SIGNOR'))
interactions <- import_omnipath_interactions()
enzsub <- get_signed_ptms(enzsub, interactions)

saezlab/OmnipathR documentation built on July 13, 2024, 6:18 p.m.