Entry: CollectionType-class
Aliases: CollectionType-class collectionType,CollectionType-method show,CollectionType-method CollectionIdType-class show,CollectionIdType-method ids ids,CollectionIdType-method NullCollection-class ExpressionSetCollection-class BroadCollection-class bcCategory,BroadCollection-method bcSubCategory,BroadCollection-method show,BroadCollection-method bcCategory bcSubCategory GOCollection-class evidenceCode,GOCollection-method goIds,GOCollection-method show,GOCollection-method evidenceCode goIds KEGGCollection-class ChrCollection-class ChrlocCollection-class OMIMCollection-class PMIDCollection-class PfamCollection-class PrositeCollection-class
Keywords: classes
Description: Class "CollectionType"
URL: ../../../library/GSEABase/html/CollectionType-class.html

Entry: CollectionType
Aliases: CollectionType NullCollection ExpressionSetCollection KEGGCollection OMIMCollection PfamCollection PrositeCollection PMIDCollection ChrCollection ChrlocCollection MapCollection GOCollection BroadCollection
Keywords: manip
Description: Collection Type Class Constructors
URL: ../../../library/GSEABase/html/CollectionType-constructors.html

Entry: GSEABase-package
Aliases: GSEABase-package GSEABase
Keywords: package
Description: Gene set enrichment data structures and methods
URL: ../../../library/GSEABase/html/GSEABase-package.html

Entry: GeneColorSet-class
Aliases: GeneColorSet-class |,GeneColorSet,GeneColorSet-method |,GeneColorSet,character-method &,GeneColorSet,GeneColorSet-method &,GeneColorSet,character-method coloring<-,GeneColorSet,data.frame-method coloring,GeneColorSet-method geneColor<-,GeneColorSet,factor-method geneColor,GeneColorSet-method initialize,GeneColorSet-method intersect,GeneColorSet,GeneColorSet-method phenotypeColor<-,GeneColorSet,factor-method phenotypeColor,GeneColorSet-method phenotype<-,GeneColorSet,character-method phenotype,GeneColorSet-method setdiff,GeneColorSet,GeneColorSet-method show,GeneColorSet-method union,GeneColorSet,GeneColorSet-method [,GeneColorSet,numeric-method [,GeneColorSet,character-method [[,GeneColorSet,numeric-method [[,GeneColorSet,character-method $,GeneColorSet-method coloring<- coloring geneColor<- geneColor phenotype<- phenotype phenotypeColor<- phenotypeColor
Keywords: classes
Description: Class "GeneColorSet"
URL: ../../../library/GSEABase/html/GeneColorSet-class.html

Entry: GeneColorSet
Aliases: GeneColorSet GeneColorSet-methods GeneColorSet,missing-method GeneColorSet,character-method GeneColorSet,GeneIdentifierType-method GeneColorSet,ExpressionSet-method GeneColorSet,GeneSet-method GeneColorSet,GOCollection-method GeneColorSet,BroadCollection-method
Keywords: methods
Description: Methods to Construct "GeneColorSet" Instances
URL: ../../../library/GSEABase/html/GeneColorSet-methods.html

Entry: GeneIdentifierType-class
Aliases: GeneIdentifierType-class geneIdType,GeneIdentifierType-method show,GeneIdentifierType-method AnnotationIdentifier-class annotation,AnnotationIdentifier-method initialize,AnnotationIdentifier-method show,AnnotationIdentifier-method NullIdentifier-class EnzymeIdentifier-class GenenameIdentifier-class RefseqIdentifier-class SymbolIdentifier-class UnigeneIdentifier-class EntrezIdentifier-class
Keywords: classes
Description: Class "GeneIdentifierType"
URL: ../../../library/GSEABase/html/GeneIdentifierType-class.html

Entry: GeneIdentifierType
Aliases: GeneIdentifierType NullIdentifier EnzymeIdentifier GenenameIdentifier RefseqIdentifier SymbolIdentifier UnigeneIdentifier EntrezIdentifier AnnotationIdentifier
Keywords: manip
Description: Gene Identifier Class Constructors
URL: ../../../library/GSEABase/html/GeneIdentifierType-constructors.html

Entry: GeneSet-class
Aliases: GeneSet-class [,GeneSet,character-method [,GeneSet,numeric-method [,ExpressionSet,GeneSet-method [[,GeneSet,character-method [[,GeneSet,numeric-method |,GeneSet,GeneSet-method |,GeneSet,character-method $,GeneSet-method &,GeneSet,GeneSet-method &,GeneSet,character-method collectionType<-,GeneSet,CollectionType-method collectionType,GeneSet-method contributor<-,GeneSet,character-method contributor,GeneSet-method creationDate<-,GeneSet,character-method creationDate,GeneSet-method description<-,GeneSet,character-method description,GeneSet-method geneIds<-,GeneSet,character-method geneIds,GeneSet-method initialize,GeneSet-method intersect,GeneSet,GeneSet-method longDescription<-,GeneSet,character-method longDescription,GeneSet-method organism<-,GeneSet,character-method organism,GeneSet-method pubMedIds<-,GeneSet,character-method pubMedIds,GeneSet-method setdiff,GeneSet,GeneSet-method setIdentifier<-,GeneSet,character-method setIdentifier,GeneSet-method setName<-,GeneSet,character-method setName,GeneSet-method geneIdType<-,GeneSet,character-method geneIdType<-,GeneSet,GeneIdentifierType-method geneIdType,GeneSet-method setVersion<-,GeneSet,Versions-method setVersion,GeneSet-method show,GeneSet-method union,GeneSet,GeneSet-method urls<-,GeneSet,character-method urls,GeneSet-method collectionType<- collectionType contributor<- contributor creationDate<- creationDate geneIds<- geneIds geneIdType geneIdType<- longDescription<- longDescription organism<- organism setIdentifier<- setIdentifier setName<- setName setVersion<- setVersion urls<- urls
Keywords: classes
Description: Class "GeneSet"
URL: ../../../library/GSEABase/html/GeneSet-class.html

Entry: GeneSet
Aliases: GeneSet GeneSet-methods GeneSet,missing-method GeneSet,character-method GeneSet,GeneIdentifierType-method GeneSet,ExpressionSet-method GeneSet,BroadCollection-method GeneSet,GOCollection-method
Keywords: methods
Description: Methods to construct GeneSet instances
URL: ../../../library/GSEABase/html/GeneSet-methods.html

Entry: GeneSetCollection-class
Aliases: GeneSetCollection-class names,GeneSetCollection-method geneIds,GeneSetCollection-method geneIds<-,GeneSetCollection,list-method |,GeneSetCollection,GeneSetCollection-method |,GeneSetCollection,ANY-method |,ANY,GeneSetCollection-method &,GeneSetCollection,GeneSetCollection-method &,GeneSetCollection,ANY-method &,ANY,GeneSetCollection-method intersect,ANY,GeneSetCollection-method intersect,GeneSetCollection,ANY-method setdiff,ANY,GeneSetCollection-method setdiff,GeneSetCollection,ANY-method union,ANY,GeneSetCollection-method union,GeneSetCollection,ANY-method [<-,GeneSetCollection,ANY,ANY,ANY-method [<-,GeneSetCollection,ANY,ANY,GeneSet-method [<-,GeneSetCollection,character,ANY,GeneSet-method [,GeneSetCollection,logical-method [,GeneSetCollection,numeric-method [,GeneSetCollection,character-method [[,GeneSetCollection,character-method [[<-,GeneSetCollection,ANY,ANY,ANY-method [[<-,GeneSetCollection,numeric,ANY,GeneSet-method [[<-,GeneSetCollection,character,ANY,GeneSet-method show,GeneSetCollection-method
Keywords: classes
Description: Class "GeneSetCollection"
URL: ../../../library/GSEABase/html/GeneSetCollection-class.html

Entry: GeneSetCollection-methods
Aliases: GeneSetCollection GeneSetCollection-methods GeneSetCollection,GeneSet,missing,missing-method GeneSetCollection,list,missing,missing-method GeneSetCollection,ExpressionSet,missing,CollectionType-method GeneSetCollection,ExpressionSet,missing,CollectionIdType-method GeneSetCollection,missing,AnnotationIdentifier,CollectionType-method GeneSetCollection,missing,AnnotationIdentifier,CollectionIdType-method GeneSetCollection,ExpressionSet,missing,KEGGCollection-method GeneSetCollection,ExpressionSet,missing,GOCollection-method GeneSetCollection,missing,AnnotationIdentifier,KEGGCollection-method GeneSetCollection,missing,AnnotationIdentifier,GOCollection-method
Keywords: methods
Description: Methods to construct GeneSetCollection instances
URL: ../../../library/GSEABase/html/GeneSetCollection-methods.html

Entry: details-methods
Aliases: details details-methods details,GeneSet-method details,GeneColorSet-method
Keywords: methods
Description: Methods for Displaying Detailed GeneSet Information
URL: ../../../library/GSEABase/html/details-methods.html

Entry: xal
Aliases: xml getBroadSets asBroadUri toBroadXML
Keywords: manip
Description: Read and Write XML Gene Sets
URL: ../../../library/GSEABase/html/getBroadSets.html

Entry: incidence-methods
Aliases: incidence incidence-methods incidence,GeneSet-method incidence,GeneSetCollection-method
Keywords: methods
Description: Methods for Constructing Incidence Matricies Between GeneSets
URL: ../../../library/GSEABase/html/incidence-methods.html

Entry: mapIdentifiers-methods
Aliases: mapIdentifiers mapIdentifiers-methods mapIdentifiers,ANY,ANY,ANY-method mapIdentifiers,GeneSet,GeneIdentifierType,missing-method mapIdentifiers,GeneSet,GeneIdentifierType,NullIdentifier-method mapIdentifiers,GeneSet,GeneIdentifierType,AnnotationIdentifier-method mapIdentifiers,GeneSet,GeneIdentifierType,environment-method mapIdentifiers,GeneSet,AnnotationIdentifier,NullIdentifier-method mapIdentifiers,GeneSet,AnnotationIdentifier,GeneIdentifierType-method mapIdentifiers,GeneSetCollection,GeneIdentifierType,missing-method
Keywords: methods
Description: Methods for Function mapIdentifiers in Package 'GSEABase'
URL: ../../../library/GSEABase/html/mapIdentifiers-methods.html
