Metabolomics timewise differential analysis

Use limma to perform pairwise contrasts between each group of trained animals and the sex-matched control group for a single tissue. Analysis is performed separately for males and females.

Usage

metab_timewise_da(tissue)

Arguments

tissue

character, tissue abbreviation, one of MotrpacRatTraining6moData::TISSUE_ABBREV

Value

a data frame with one row per metabolite, time, and sex combination:

feature_ID

character, MoTrPAC feature identifier

sex

character, one of 'male' or 'female'

cv

double, coefficient of variation for case samples

control_cv

double, coefficient of variation for control samples

logFC

double, log fold-change where the numerator is 'comparison_group', e.g., '1w', and the denominator is the group of sex-matched sedentary control animals

logFC_se

double, standard error of the log fold-change

tscore

double, t statistic

covariates

character, comma-separated list of adjustment variables or NA

comparison_group

character, time point of trained animals compared to the sex-matched sedentary control animals, one of '1w', '2w', '4w', '8w'

p_value

double, unadjusted p-value for the difference between 'comparison_group' and the group of sex-matched sedentary control animals

comparison_average_intensity

double, average intensity among the replicates in 'comparison_group'

reference_average_intensity

double, average intensity among the replicates in the group of sex-matched sedentary control animals

dataset

character, the metabolomics platform in which the metabolite is detected

Examples

# Perform timewise differential analysis for metabolites in heart tissue
res = metab_timewise_da("HEART")