calculate_activity_score: Calculate Activity Scores for Metabolic Modules

In tidymass/metpath: Pathway analysis for metabolomics data

Calculate Activity Scores for Metabolic Modules

Description

This function calculates activity scores for metabolic modules based on their network properties, including modularity, detected metabolite contributions, and overall network connectivity.

Usage

calculate_activity_score(
  metabolic_modules,
  detected_metabolites,
  hidden_metabolites,
  sub_metabolic_network,
  threads = 8
)

Arguments

metabolic_modules	A list of metabolic modules, each containing metabolite IDs.
detected_metabolites	A character vector of detected metabolite IDs.
hidden_metabolites	A character vector of hidden metabolite IDs.
sub_metabolic_network	An 'igraph' object representing the metabolic subnetwork.
threads	Integer; number of parallel threads to use. Default is '3'.

Value

A numeric vector of activity scores for each metabolic module.

tidymass/metpath documentation built on June 1, 2025, 10:05 p.m.