D.diffusion-class       An internal S4 class for the diffusion data
D.hypergeom-class       An internal S4 class for the binary matrix
                        (hypergeometric test)
D.keggdata-class        An internal S4 class to represent the KEGG
                        graph and related files
D.pagerank-class        An internal S4 class for the PageRank data
FELLA                   The FELLA package
FELLA.DATA-class        An S4 class to represent all the necessary KEGG
                        data
FELLA.USER-class        An S4 class to save all the user analysis data
FELLA.sample            FELLA.DATA sample data
U.diffusion-class       An internal S4 class for the user data of the
                        diffusion enrichment analysis
U.hypergeom-class       An internal S4 class for the user data of the
                        hypergeometric over representation analysis
U.pagerank-class        An internal S4 class for the user data of the
                        PageRank enrichment analysis
U.userinput-class       An internal S4 class for the user input data
data-funs               Parse, build and load the KEGG knowledge model
enrich-funs             Functions to map and enrich a list of
                        metabolites
export-funs             Generate and manipulate tables and sub-networks
                        from an enrichment
getBackground           Get compounds in the defined background
getCom                  Get community
getExcluded             Get excluded compounds
getGraph                Get KEGG graph
getInfo                 Get KEGG version info
getInput                Get metabolites in the input
getMatrix               Get matrix for the desired methodology
getName                 Map KEGG identifiers to KEGG names
getPscores              Get p-scores from the desired methodology
getStatus               Get the slot "status"
getSums                 Get rowSums/squaredRowSums
getValid                Get the slot "valid"
input.sample            A randomly generated list of affected
                        metabolites
is.FELLA.DATA           Check FELLA.DATA class
is.FELLA.USER           Check FELLA.USER class
launchApp               Launch a shiny app with FELLA
listApprox              List of approximations
listCategories          List of node categories
listInternalDatabases   List internal databases
listMethods             List of methods
plotLegend              Internal function to add a legend to a graph
                        plot
