nichenet_gr_network_evex {OmnipathR} | R Documentation

## NicheNet gene regulatory network from EVEX

### Description

Builds a gene regulatory network using data from the EVEX database and converts it to a format suitable for NicheNet.

### Usage

    nichenet_gr_network_evex(
      top_confidence = 0.75,
      indirect = FALSE,
      regulation_of_expression = FALSE
    )

### Arguments

`top_confidence` | Double, between 0 and 1. Threshold based on the quantile of the confidence score.
`indirect` | Logical: whether to include indirect interactions.
`regulation_of_expression` | Logical: whether to include also the "regulation of expression" type interactions.

### Value

Data frame of interactions in NicheNet format.

Data frame with gene regulatory interactions in NicheNet format.

### See Also

- `nichenet_gr_network`

- `evex_download`

### Examples

    # use only the 10% with the highest confidence:
    evex_gr_network <- nichenet_gr_network_evex(top_confidence = .9)

[Package OmnipathR version 3.2.0 Index]