anova_ana: Performs anova analysis Performs an anova across all response...

In metabolomicsworkbench/MetENP: Metabolite enrichment analysis and their associated enriched pathways

Performs anova analysis Performs an anova across all response variables. The function takes 2 independent variables.

Description

Performs anova analysis Performs an anova across all response variables. The function takes 2 independent variables.

Usage

anova_ana(
  metabolomics_data,
  met_col,
  analysis_type,
  sample_col,
  metadata,
  normalization,
  factor_col1,
  factor_col2,
  p_adjust
)

Arguments

metabolomics_data	metabolomics data
met_col	column with metabolite names
analysis_type	type of analysis ex-GCMS, HILIAC positive ion mode.
sample_col	the column name having samples
metadata	Metadata
normalization	normalization methods any of the three: half_of_min, remove_NAs and 50percent half_of_min: where the NAs are replaced by half of min values in the data remove_NAs: where Cols with NAs values are removed 50percent: where cols with more than 50% NAs values are removed
factor_col1	column name of first independent variable
factor_col2	column name of second independent variable
p_adjust	Method for p value adjustment, i.e. "fdr"

Examples

anova_result = anova_ana(metabolomics_data=data,met_col="metabolite_name",analysis_type=c('Phospholipids, Chol. esters and Diacylglycerols','Sphingolipids'), metadata=metadata,normalization="50percent", factor_col1="TreatmentGroup",factor_col2="SamplingTimePoint",p_adjust="fdr")

metabolomicsworkbench/MetENP documentation built on April 12, 2025, 7:55 p.m.