compute_discrete_bifurcation: Computes the quantitative discrete bifurcation function of...

In VladoBaca/BNRewiringRobustness: Discrete Bifurcation Analysis and Rewiring Robustness of Asynchronous Boolean Networks

Description

Computes the quantitative discrete bifurcation function of the given baseline BN in the parametrisation space represented by the given RG. If necessary, the motif extension is created before computation.

Usage

compute_discrete_bifurcation(
  bn_baseline_network,
  rg_rewiring_space,
  output_genes = character(),
  semantics = "async",
  attractor_similarity = "activity",
  return_pbn = FALSE
)

Arguments

bn_baseline_network	the baseline BN. Either a file path or a BooleanNetworkin-stance returned by load_BN.
rg_rewiring_space	the RG representing the parametrisation space. Either a file path or an RG data frame.
output_genes	the vector of output genes. Must be a subset of genes inbn. If not provided, defaults to BN genes
semantics	the BN semantics to be used:"async"or"sync"
attractor_similarity	the attractor similarity measure to be used:"activity"or"overlap"
return_pbn	the logical value indicating whether to also return the constructed PBN

Value

The table of rewiring distance and attractor landscape similarity for all parametrisations.

VladoBaca/BNRewiringRobustness documentation built on Jan. 25, 2022, 11:51 p.m.