dyngen (version 1.0.5)

generate_tf_network: 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
)

Value

A dyngen model.

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.

See Also

dyngen on how to run a complete dyngen simulation

Examples

model <- 
  initialise_model(
    backbone = backbone_bifurcating()
  )
model <- model %>%
  generate_tf_network() 
  
# \donttest{
plot_feature_network(model)
# }