compute_CMs: Compute CM values for all target candidates.

In ptrcksn/BINDER: BayesIan gene regulatory Networks inferreD via gene coExpression and compaRative genomics

Description

Compute CM values for all target candidates.

Usage

compute_CMs(target_candidates, ME_module, coexpression, O = NULL,
  threshold = "auto")

Arguments

target_candidates	Character vector containing all target candidates for regulator.
ME_module	Character vector comprising all target candidates with a high affinity for regulator motif.
coexpression	Numerical symmetric matrix providing gene coexpression values.
O	Named list where each name is a target candidate and each element is a character vector comprising names of genes that should not be included in the computation of CM for the corresponding target candidate name; by default only autocoexpression is excluded.
threshold	Numerical cutoff point: any values above threshold are considered to form a coexpression module with target_candidate; defaults to "auto" which represents the 95th percentile of coexpression scores involving target_candidate.

Value

Numerical vector containing CM values for target_candidates.

ptrcksn/BINDER documentation built on Nov. 5, 2019, 1:56 a.m.