Predict gene expression under TF perturbation

Predict gene expression under TF perturbation

predictPerturbation(
  object,
  perturb_tfs,
  use_weight = FALSE,
  n_iter = 5,
  scale_factor = 0.1,
  verbose = TRUE
)

# S4 method for class 'Network'
predictPerturbation(
  object,
  perturb_tfs,
  use_weight = FALSE,
  n_iter = 3,
  scale_factor = 0.1,
  verbose = TRUE
)

# S4 method for class 'CSNObject'
predictPerturbation(object, perturb_tfs, use_weight = FALSE)

Arguments

object

A Network or CSNObject object

perturb_tfs

Named vector of TF perturbation states

use_weight

Logical, whether to use network weights instead of coefficients

n_iter

Number of iterations for perturbation simulation

scale_factor

Scale factor for perturbation effect (0-1)

verbose

Whether to show progress messages

Value

Updated object with perturbation predictions