Infer a gene regulatory network with GENIE3 — network_genie3 • bulkMAE

Infer a gene regulatory network with GENIE3

Usage

network_genie3(
  x,
  experiment,
  assay,
  regulators = NULL,
  targets = NULL,
  trees = 1000,
  cores = 1,
  seed = NULL,
  ...
)

Arguments

x: A MultiAssayExperiment object.
experiment: Optional experiment name.
assay: Assay name or one-based assay index.
regulators: Optional regulator names or indices.
targets: Optional target names or indices.
trees: Number of trees.
cores: Number of worker cores.
seed: Optional random seed.
...: Additional arguments passed to GENIE3::GENIE3().

Value

A native GENIE3 weight matrix.