Entry: Aggregate
Aliases: Aggregate
Keywords: programming methods
Description: A Simple Aggregation Mechanism.
URL: ../../../library/Biobase/html/Aggregate.html

Entry: Biobase-package
Aliases: Biobase-package Biobase
Keywords: package
Description: Biobase Package Overview
URL: ../../../library/Biobase/html/Biobase-package.html

Entry: addVigs2WinMenu
Aliases: addVigs2WinMenu
Keywords: interface
Description: Add Menu Items to an Existing/New Menu of Window
URL: ../../../library/Biobase/html/addVig2Menu.html

Entry: MIAME
Aliases: class:MIAME MIAME
Keywords: classes
Description: Class for Storing Microarray Experiment Information
URL: ../../../library/Biobase/html/class.MIAME.html

Entry: aggregator
Aliases: aggregator class:aggregator
Keywords: methods classes
Description: A Simple Class for Aggregators
URL: ../../../library/Biobase/html/class.aggregator.html

Entry: annotatedDataset
Aliases: class:annotatedDataset annotatedDataset
Keywords: classes
Description: Virtual Superset for 'exprSet', 'eSet' etc.
URL: ../../../library/Biobase/html/class.annotatedDataset.html

Entry: class:characterORMIAME
Aliases: class:characterORMIAME
Keywords: classes
Description: Class to Make Older Versions Compatible
URL: ../../../library/Biobase/html/class.characterORmiame.html

Entry: container
Aliases: class:container container
Keywords: methods classes
Description: A Lockable List Structure with Constraints on Content
URL: ../../../library/Biobase/html/class.container.html

Entry: eSet
Aliases: eSet class:eSet listOrEnv eList SW SWPD swrep golubMergeSub assayData
Keywords: classes
Description: General Container for High-Throughput Assays and Experimental Metadata
URL: ../../../library/Biobase/html/class.eSet.html

Entry: class:exprList
Aliases: class:exprList
Keywords: classes
Description: Class Union of a List and an Environment
URL: ../../../library/Biobase/html/class.exprList.html

Entry: class:exprMatrix
Aliases: class:exprMatrix
Keywords: classes
Description: Class Union for Objects Behaving Like a Matrix
URL: ../../../library/Biobase/html/class.exprMatrix.html

Entry: exprSet
Aliases: exprSet class:exprSet as.data.frame.exprSet split write.exprs update2MIAME exprs2excel
Keywords: methods classes
Description: Class for Microarray Data and Methods for Processing Them
URL: ../../../library/Biobase/html/class.exprSet.html

Entry: phenoData
Aliases: class:phenoData phenoData varMetadata pData
Keywords: methods manip classes
Description: Class For Patient or Experiment Level Data
URL: ../../../library/Biobase/html/class.phenoData.html

Entry: combine
Aliases: combine
Keywords: manip
Description: Combine Data Into a Single Object.
URL: ../../../library/Biobase/html/combine.html

Entry: contents
Aliases: contents
Keywords: manip
Description: Function to retrieve contents of environments
URL: ../../../library/Biobase/html/contents.html

Entry: copyEnv
Aliases: copyEnv l2e listLen
Keywords: utilities
Description: List-Environment interactions
URL: ../../../library/Biobase/html/copyEnv.html

Entry: copySubstitute
Aliases: copySubstitute
Keywords: connection programming
Description: Copy Between Connections or Files with Configure-Like Name-Value Substitution
URL: ../../../library/Biobase/html/copySubstitute.html

Entry: createPackage
Aliases: createPackage
Keywords: programming
Description: Create a Package Directory from a Template
URL: ../../../library/Biobase/html/createPackage.html

Entry: data:aaMap
Aliases: data:aaMap aaMap
Keywords: datasets
Description: Dataset: Names and Characteristics of Amino Acids
URL: ../../../library/Biobase/html/data.aaMap.html

Entry: data:eset
Aliases: data:eset eset
Keywords: datasets
Description: Dataset of class 'exprSet'
URL: ../../../library/Biobase/html/data.eset.html

Entry: data:exSet
Aliases: data:exSet exSet
Keywords: datasets
Description: Dataset of class 'exprSet'
URL: ../../../library/Biobase/html/data.exSet.html

Entry: data:geneData
Aliases: data:geneData geneData geneCovariate seD
Keywords: datasets
Description: A subset of some expression data.
URL: ../../../library/Biobase/html/data.geneData.html

Entry: reporter
Aliases: reporter
Keywords: datasets
Description: Example Data Frame Object for the ReporterInfo Slot
URL: ../../../library/Biobase/html/data.reporter.html

Entry: dumpPackTxt
Aliases: dumpPackTxt
Keywords: models
Description: Dump Textual Description of a Package
URL: ../../../library/Biobase/html/dumpPackTxt.html

Entry: esApply
Aliases: esApply
Keywords: models methods
Description: Apply for the Expression Data in 'exprSet'
URL: ../../../library/Biobase/html/esApply.html

Entry: getPkgVigs
Aliases: getPkgVigs
Keywords: utilities
Description: List Vignette Files for a Package
URL: ../../../library/Biobase/html/getPkgVigs.html

Entry: abstract
Aliases: abstract addNonExisting addPDF2Vig addVarMetadataEntry addVig2Menu addVig4Unix addVig4Win aggenv aggfun annotation annotation<- assayData<- content convertVarLabels description description<- df2pD eList<- expinfo exprs exprs<- geneNames geneNames<- getExpData getUnits getVarMetadata hybridizations initfun iter locked normControls notes notes<- otherInfo pData<- phenoData<- preproc read.pD reporterInfo reporterInfo<- reporterNames sampleNames sampleNames<- samples se.exprs se.exprs<- varLabels MIAME-class eSet-class exprSet-class aggregator-class annotatedDataset-class characterORMIAME-class container-class data.frameOrNULL-class exprMatrix-class listOrEnv-class phenoData-class bbsym geneCov abstract,MIAME-method abstract,exprSet-method addVarMetadataEntry,phenoData,character,character-method aggenv,aggregator-method aggfun,aggregator-method annotation<-,eSet-method annotation<-,exprSet-method annotation,eSet-method annotation,exprSet-method as.data.frame.exprSet,exprSet-method assayData<-,eSet,listOrEnv-method assayData,eSet-method assayData,exprSet-method [,container-method [,phenoData-method [,eSet-method [,exprSet-method [[<-,container-method [[<-,phenoData-method [[<-,annotatedDataset-method [[,container-method [[,phenoData-method [[,annotatedDataset-method $<-,phenoData-method $<-,annotatedDataset-method $,phenoData-method $,annotatedDataset-method coerce,data.frame,phenoData-method coerce,exprSet,eSet-method combine,phenoData,phenoData-method combine,phenoData,ANY-method combine,eSet,eSet-method combine,eSet,ANY-method content,container-method contents,environment-method convertVarLabels,phenoData-method description<-,eSet-method description<-,exprSet-method description,eSet-method description,exprSet-method dim,eSet-method eList<-,eSet,listOrEnv-method eList,eSet-method expinfo,MIAME-method exprs2excel,exprSet-method exprs<-,eSet,listOrEnv-method exprs<-,exprSet-method exprs,eSet-method exprs,exprSet-method geneNames<-,exprSet-method geneNames,exprSet-method getExpData,eSet,character-method getUnits,phenoData,character-method getVarMetadata,phenoData,character,character-method getVarMetadata,phenoData,character,missing-method hybridizations,MIAME-method initfun,aggregator-method iter,exprSet,missing,function-method iter,exprSet,missing,list-method iter,exprSet,character,function-method length,container-method locked,container-method ncol,eSet-method normControls,MIAME-method notes<-,eSet-method notes<-,exprSet-method notes,eSet-method notes,exprSet-method otherInfo,MIAME-method pData<-,phenoData-method pData<-,annotatedDataset-method pData,phenoData-method pData,annotatedDataset-method phenoData<-,annotatedDataset,phenoData-method phenoData,annotatedDataset-method preproc,MIAME-method reporterInfo<-,annotatedDataset,data.frame-method reporterInfo,annotatedDataset-method reporterNames,eSet-method sampleNames<-,eSet,character-method sampleNames<-,exprSet-method sampleNames,eSet-method sampleNames,exprSet-method samples,MIAME-method se.exprs<-,exprSet-method se.exprs,exprSet-method show,container-method show,phenoData-method show,MIAME-method show,eSet-method show,exprSet-method split,exprSet,factor,missing-method split,exprSet,vector,missing-method split,phenoData,vector,missing-method update2MIAME,exprSet-method varLabels,phenoData-method varLabels,annotatedDataset-method varMetadata,phenoData-method write.exprs,exprSet-method
Keywords: internal
Description: Internals
URL: ../../../library/Biobase/html/internals.html

Entry: isUnique
Aliases: isUnique
Keywords: logic manip
Description: Determine Unique Elements
URL: ../../../library/Biobase/html/isUnique.html

Entry: multiassign
Aliases: multiassign
Keywords: data
Description: Assign Values to a Names
URL: ../../../library/Biobase/html/multiassign.html

Entry: note
Aliases: note
Keywords: utilities
Description: Informational Messages
URL: ../../../library/Biobase/html/note.html

Entry: openPDF
Aliases: openPDF
Keywords: utilities
Description: Open PDF Files in a Standard Viewer
URL: ../../../library/Biobase/html/openPDF.html

Entry: openVignette
Aliases: openVignette
Keywords: utilities
Description: Open a Vignette or Show Vignette Selection Menu
URL: ../../../library/Biobase/html/openVignette.html

Entry: package.version
Aliases: package.version
Keywords: utilities
Description: Report Version of a Package
URL: ../../../library/Biobase/html/package.version.html

Entry: read.MIAME
Aliases: read.MIAME
Keywords: file
Description: Read MIAME Information into an Instance of Class 'MIAME'
URL: ../../../library/Biobase/html/read.MIAME.html

Entry: read.exprSet
Aliases: read.exprSet
Keywords: file manip
Description: Read Experimental Data and into an 'exprSet' Object
URL: ../../../library/Biobase/html/read.exprSet.html

Entry: read.phenoData
Aliases: read.phenoData
Keywords: file manip
Description: Read 'phenoData'
URL: ../../../library/Biobase/html/read.phenoData.html

Entry: reverseSplit
Aliases: reverseSplit
Keywords: manip
Description: A function to reverse the role of names and values in a list.
URL: ../../../library/Biobase/html/reverseSplit.html

Entry: rowQ
Aliases: rowQ rowMin rowMax rowMedians
Keywords: manip
Description: A function to compute empirical row quantiles.
URL: ../../../library/Biobase/html/rowQ.html

Entry: strbreak
Aliases: strbreak
Keywords: character
Description: Break Character Strings to Fit Width
URL: ../../../library/Biobase/html/strbreak.html

Entry: testBioCConnection
Aliases: testBioCConnection
Keywords: utilities
Description: A function to check internet connectivity to Bioconductor
URL: ../../../library/Biobase/html/testBioCConnection.html
