get_dorothea {decoupleR} | R Documentation

## DoRothEA gene regulatory network.

### Description

Wrapper to access DoRothEA gene regulatory network. DoRothEA is a comprehensive resource containing a curated collection of transcription factors (TFs) and their target genes. Each interaction is weighted by its mode of regulation (either positive or negative) and by its confidence level

### Usage

    get_dorothea(
      organism = "human",
      levels = c("A", "B", "C"),
      weight_dict = list(A = 1, B = 2, C = 3, D = 4)
    )

### Arguments

`organism` | Which organism to use. Only human and mouse are available.
`levels` | List of confidence levels to return. Goes from A to D, A being the most confident and D being the less.
`weight_dict` | Dictionary of values to divide the mode of regulation (-1 or 1), one for each confidence level. Bigger values will generate weights close to zero.

### Examples

    dorothea <- get_dorothea(organism='human', levels=c('A', 'B', 'C'))

[Package decoupleR version 2.0.1 Index]