generate_tf_network: Generate a transcription factor network from the backbone

In dyngen: A Multi-Modal Simulator for Spearheading Single-Cell Omics Analyses

Generate a transcription factor network from the backbone

Description

generate_tf_network() generates the transcription factors (TFs) that drive the dynamic process a cell undergoes. tf_network_default() is used to configure parameters pertaining this process.

Usage

generate_tf_network(model)

tf_network_default(
  min_tfs_per_module = 1L,
  sample_num_regulators = function() 2,
  weighted_sampling = FALSE
)

Arguments

model	A dyngen initial model created with initialise_model().
min_tfs_per_module	The number of TFs to generate per module in the backbone.
sample_num_regulators	A function to generate the number of TFs per module each TF will be regulated by.
weighted_sampling	When determining what TFs another TF is regulated by, whether to perform weighted sampling (by rank) or not.

Value

A dyngen model.

See Also

dyngen on how to run a complete dyngen simulation

Examples

model <- 
  initialise_model(
    backbone = backbone_bifurcating()
  )
model <- model %>%
  generate_tf_network() 
  

plot_feature_network(model)

dyngen documentation built on Oct. 12, 2022, 5:06 p.m.