nichenet_gr_network_remap {OmnipathR} | R Documentation

## NicheNet gene regulatory network from ReMap

### Description

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

### Usage

    nichenet_gr_network_remap(
      score = 100,
      top_targets = 500,
      only_known_tfs = TRUE
    )

### Arguments

`score` | Numeric: a minimum score between 0 and 1000, records with lower scores will be excluded. If NULL no filtering performed.
`top_targets` | Numeric: the number of top scoring targets for each TF. Essentially the maximum number of targets per TF. If NULL the number of targets is not restricted.
`only_known_tfs` | Logical: whether to exclude TFs which are not in TF census.

### Value

Data frame with gene regulatory interactions in NicheNet format.

### See Also

- `remap_filtered`

- `nichenet_gr_network`

### Examples

    # use only max. top 100 targets for each TF:
    remap_gr_network <- nichenet_gr_network_remap(top_targets = 100)

[Package OmnipathR version 3.2.0 Index]