A Metabolomics Analysis Tool for Intuitive Figures and Convenient Metadata Collection


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Documentation for package ‘omu’ version 1.0.2

Help Pages

assign_hierarchy Assign hierarchy metadata
c57_nos2KO_mouse_countDF c57b6J nos2KO metabolomics count matrix
c57_nos2KO_mouse_metadata c57b6J nos2KO meta data
count_fold_changes Get counts for significant fold changes by metabolite class.
KEGG_gather Gather metadata from KEGG for metabolites
KEGG_gather.cpd Gather metadata from KEGG for metabolites
KEGG_gather.KO Gather metadata from KEGG for metabolites
KEGG_gather.rxn Gather metadata from KEGG for metabolites
make_omelette Get metadata from KEGG API
omu_anova Perform anova Performs an anova across all response variables. The function can take a maximum of 2 independent variables and perform an interaction term between them.
omu_summary omu_summary Performs t test, standard deviation, standard error, FDR correction, fold change, log2FoldChange. The order effects the fold change values
PCA_plot Create a PCA plot
pie_chart Create a pie chart
plate_omelette plate_omelette Internal method for KEGG_Gather
plate_omelette.genes plate_omelette Internal method for KEGG_Gather
plate_omelette.rxn plate_omelette Internal method for KEGG_Gather
plate_omelette_rxnko Clean up orthology metadata
plot_bar Create a bar plot
plot_volcano Create a volcano plot
ra_table Creates a ratio table from the count_fold_changes function output.
read_metabo Import a metabolomics count data frame