Imports interactions from the `ligrec extra` dataset of OmniPathSource:
Imports the dataset from: https://omnipathdb.org/interactions?datasets=ligrecextra, which contains ligand-receptor interactions without literature reference. The ligand-receptor interactions supported by literature references are part of the `omnipath` dataset.
import_ligrecextra_interactions( resources = NULL, organism = 9606, fields = NULL, default_fields = TRUE, references_by_resource = TRUE, exclude = NULL, ... )
interactions not reported in these databases are removed. See
get_interaction_resourcesfor more information.
Interactions are available for human, mouse and rat. Choose among: 9606 human (default), 10116 rat and 10090 Mouse
The user can define here the fields to be added. If used, set the next argument, `default_fields`, to FALSE.
whether to include the default fields (columns) for the query type. If FALSE, only the fields defined by the user in the `fields` argument will be added.
if FALSE, removes the resource name prefixes from the references (PubMed IDs); this way the information which reference comes from which resource will be lost and the PubMed IDs will be unique.
Character: datasets or resources to exclude.
optional additional arguments
A dataframe containing ligand-receptor interactions including the ones without literature references
interactions <- import_ligrecextra_interactions( resources = c('HPRD', 'Guide2Pharma'), organism = 9606 )