metclassenrichment: Provides enrichment score of the selected metabolic class via...

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

Provides enrichment score of the selected metabolic class via hypergeometric score

Description

Provides enrichment score of the selected metabolic class via hypergeometric score

Usage

metclassenrichment(
  df_metclass,
  refmet_class,
  metclass,
  enrich_stats,
  no,
  debug = 0
)

Arguments

df_metclass	dataframe having significant metabolite with metabolite class and kegg ids
refmet_class	dataframe having all the metabolites in the study with refmet classification
metclass	Sub class, Main class or Super class
enrich_stats	HG for hypergeometric score ## leaves room for further including of KS stats
no	number of significant metabolites that should be in a class, default 1, should increase to 3 or more for a
debug	flag to indicate if run in debug mode better statistically significant score. Default is chosen as 1 so as to get information on all the significant metabolites without any filtering.

Examples

metenrichment = metclassenrichment(df_metclass=sig_metabolites_kegg_id, refmet_class, metclass= "Sub class",enrich_stats="HG",no=1, debug = 0)

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