nichenet_signaling_network_omnipath {OmnipathR} | R Documentation

## Builds signaling network for NicheNet using OmniPath

### Description

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

- `nichenet_signaling_network`

### Examples

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

[Package OmnipathR version 3.0.0 Index]