import_PathwayExtra_Interactions {OmnipathR}R Documentation

Imports from Omnipath webservice the interactions from Pathwayextra dataset

Description

Imports the dataset from: http://omnipathdb.org/interactions?datasets=pathwayextra, which contains activity flow interactions without literature reference

Usage

import_PathwayExtra_Interactions(
  from_cache_file = NULL,
  filter_databases = get_interaction_databases(),
  select_organism = 9606
)

Arguments

from_cache_file

path to an earlier data file

filter_databases

interactions not reported in these databases are removed. See get_interaction_databases for more information.

select_organism

Interactions are available for human, mouse and rat. Choose one of those: 9606 human (default), 10116 rat or 10090 Mouse

Value

A dataframe containing activity flow interactions between proteins without literature reference

See Also

get_interaction_databases, import_AllInteractions

Examples

interactions <- 
    import_PathwayExtra_Interactions(filter_databases=c("BioGRID","IntAct"),
     select_organism = 9606)

[Package OmnipathR version 1.0.1 Index]