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Builds signaling network for NicheNet using OmniPath

Source: R/nichenet.R
nichenet_signaling_network_omnipath.Rd

Retrieves network prior knowledge from OmniPath and provides it in a format suitable for NicheNet. This method never downloads the `ligrecextra` dataset because the ligand-receptor interactions are supposed to come from nichenet_lr_network_omnipath.

Usage

nichenet_signaling_network_omnipath(min_curation_effort = 0, ...)

Arguments

min_curation_effort

Lower threshold for curation effort

...

Passed to import_post_translational_interactions

Value

A network data frame (tibble) with signaling interactions suitable for use with NicheNet.

See also

Examples

# use interactions with at least 2 evidences (reference or database)
op_signaling_network <- nichenet_signaling_network_omnipath(
    min_curation_effort = 2
)