ALLModules              ISA transcription modules for the ALL data
ISA                     Iterative Signature Algorithm on Gene
                        Expression data
ISA2heatmap             Heatmap of a transcription module
ISACHR                  Calculate chromosome enrichment for
                        transcription modules
ISAExpressionSet-class
                        Expression Set, normalized for using with ISA
ISAFilterRobust         Robustness of ISA biclusters
ISAGO                   Calculate Gene Ontology enrichment for
                        transcription modules
ISAHTML                 Create HTML summary pages from the result of
                        modular analysis
ISAIterate              Perform the Iterative Signature Algorithm
ISAKEGG                 Calculate KEGG Pathway enrichment for
                        transcription modules
ISAModules-class        A set of ISA modules
ISANormalize            Normalize expression data for the Iterative
                        Signature Algorithm
ISASweep                Create an ISA module tree
ISAUnique               Remove duplicated ISA modules
ISAmiRNA                Calculate (predicted) miRNA target enrichment
                        for transcription modules
ListHyperGParams-class
                        Classes for quick GO/KEGG/CHR/miRNA target or
                        other enrichment calculation of multiple gene
                        sets.
ListHyperGResult-class
                        Classes for quick GO/KEGG/CHR/miRNA target or
                        other enrichment calculation for multiple gene
                        sets
anrichment              Enrichment analysis for transcription modules,
                        based on user-defined categories
coerce,Biclust,ISAModules-method
                        Convert ISA modules to a Biclust object, or the
                        opposite
condPlot                Plot sample scores of a transcription module
expPlot                 Expression matrix plots for ISA modules
gograph                 Plot part of the Gene Ontology hierarchy
mnplot                  Plot group means against each other, for an ISA
                        module
overlap                 Overlap of ISA biclusters
profilePlot             Profile plots for ISA biclusters
