BGe_node: BGe score for specific node

In anna-pacinkova/intomics_package: Integrative analysis of multi-omics data to infer regulatory networks

BGe score for specific node

Description

BGe_node Computes the BGe score of given node using precomputed sets of all possible parents.

Usage

BGe_node(
  node,
  adjacency_matrix,
  parent_set_combinations,
  BGe_score_all_configs_node
)

Arguments

node	character vector with given node name.
adjacency_matrix	adjacency matrix of given network.
parent_set_combinations	list of all possible parent set configuration for all nodes available.
BGe_score_all_configs_node	list of nodes BGe score for all possible parent set configurations.

Value

Numeric vector of length 1: BGe score of given node

Examples

data(list=c("PK", "TFtarg_mat", "annot", "layers_def", "omics"),
     package="IntOMICS")
OMICS_mod_res <- OMICS_module(omics = omics, PK = PK, annot = annot,
    layers_def = layers_def, TFtargs = TFtarg_mat,
    r_squared_thres = 0.3, lm_METH = TRUE)
first.adapt.phase_net <- first_adapt_phase(omics = OMICS_mod_res$omics, 
    B_prior_mat = OMICS_mod_res$B_prior_mat, len = 5, 
    energy_all_configs_node = OMICS_mod_res$pf_UB_BGe_pre$energy_all_configs_node,
    layers_def = OMICS_mod_res$layers_def, 
    prob_mbr = 0.07, annot = OMICS_mod_res$annot,
    BGe_score_all_configs_node = OMICS_mod_res$pf_UB_BGe_pre$BGe_score_all_configs_node, 
    parent_set_combinations = OMICS_mod_res$pf_UB_BGe_pre$parents_set_combinations)
adjacency_matrix <- OMICS_mod_res$B_prior_mat
adjacency_matrix[,] <- 0
BGe_node(node = "ENTREZID:2535", adjacency_matrix = adjacency_matrix,
    parent_set_combinations =
    OMICS_mod_res$pf_UB_BGe_pre$parents_set_combinations, 
    BGe_score_all_configs_node =
    OMICS_mod_res$pf_UB_BGe_pre$BGe_score_all_configs_node)

anna-pacinkova/intomics_package documentation built on Aug. 13, 2022, 11:38 a.m.