import_Omnipath_Interactions {OmnipathR}R Documentation

Import Omnipath interaction database

Description

imports the database from http://omnipathdb.org/interactions, which contains only interactions with references. These interactions are the original ones from the first Omnipath version.

Usage

import_Omnipath_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 among: 9606 human (default), 10116 rat and 10090 Mouse

Value

A dataframe containing information about protein-protein interactions

See Also

get_interaction_databases, import_AllInteractions

Examples

interactions = import_Omnipath_Interactions(filter_databases=c("SignaLink3"),
               select_organism = 9606)
               

[Package OmnipathR version 1.0.1 Index]