Returns ordered list of the nodes by their influence on the signal of specified nodes.

Usage

calc_node_partial_influences(
  pathway,
  exp_fc_matrix = NULL,
  influenced_node,
  influence_direction = "any",
  node_combinations = 1,
  nproc = 1,
  get_influence_matrix = FALSE
)

Arguments

pathway: Pathway onbject.
exp_fc_matrix: expression fold change matrix with gene etrez id rownames.
influenced_node: sigle id of node or vector of node ids based on which partial influencse will be calculated.
influence_direction: in which direction node affects the signal of target node. Possible values c("+", "-", "any"). Default value is "any".
node_combinations: number of node combinations for partial influence analysis. Note: number of PSF calculations increases by the exponent of combinations(N nodes^combinations). Default value is 1.
nproc: number of cpus to use for calculation. Default value is 1.
get_influence_matrix: When set to true influence matrix will be returned instead of influencial nodes. Each column in influence matrix represent the log ratio of default and neutralized node(s) psf profile.