calculate_var_shares: Wrapper function to calculate contributions to variance,...

In borenstein-lab/mimosa2: Model-based Integration of Metabolite Observations and Species Abundances

Wrapper function to calculate contributions to variance, specific method depends on configuration

Description

Wrapper function to calculate contributions to variance, specific method depends on configuration

Usage

calculate_var_shares(
  species_contribution_table,
  met_table,
  model_results,
  config_table,
  valueVar = "newValue",
  species_merge = NULL,
  signif_threshold = 0.2,
  add_summary = T
)

Arguments

species_contribution_table	Table of species contributions (with residuals)
met_table	Long-form table of metabolite concentrations (Only used for permutation-based calculation)
model_results	Model fitting results from fit_cmp_mods
config_table	Table of analysis settings
valueVar	Column name to use for values
signif_threshold	Only analyze metabolites with a model p-value less than this value (for rank-based only)

Value

Data table of variance shares by each species in the original table for each metabolite

Examples

calculate_var_shares(species_cmps)

borenstein-lab/mimosa2 documentation built on Dec. 19, 2024, 12:44 a.m.