Implementation for the ISA Abstract Model

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Documentation for package ‘isatabr’ version 1.0.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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aFiles	Get and set aFiles.
aFiles-method	Get and set aFiles.
aFiles<-	Get and set aFiles.
aFiles<--method	Get and set aFiles.
assayTab	S4 Class assayTab, initialization methods
assayTab-class	S4 Class assayTab, initialization methods
getAssayFileNames	Retrieve the Assay File Name(s) per Study from an ISA object.
getAssayTabs	Retrieve Assay Tables from an ISA object.
getStudyFileNames	Retrieve the Study Identifier(s) and Study File Name(s) from an ISA object.
iContacts	Get and set iContacts.
iContacts-method	Get and set iContacts.
iContacts<-	Get and set iContacts.
iContacts<--method	Get and set iContacts.
iFileName	Get and set iFileName
iFileName-method	Get and set iFileName
iFileName<-	Get and set iFileName
iFileName<--method	Get and set iFileName
initialize-method	S4 Class ISA, initialization method
invest	Get and set invest.
invest-method	Get and set invest.
invest<-	Get and set invest.
invest<--method	Get and set invest.
iPubs	Get and set iPubs.
iPubs-method	Get and set iPubs.
iPubs<-	Get and set iPubs.
iPubs<--method	Get and set iPubs.
ISA	S4 Class ISA, initialization method
ISA-class	S4 Class ISA, initialization method
ISA-initialize	S4 Class ISA, initialization method
isaPath	Get and set path
isaPath-method	Get and set path
isaPath<-	Get and set path
isaPath<--method	Get and set path
microarrayAssayTab	S4 Class assayTab, initialization methods
microarrayAssayTab-class	S4 Class assayTab, initialization methods
msAssayTab	S4 Class assayTab, initialization methods
msAssayTab-class	S4 Class assayTab, initialization methods
oSR	Get and set oSR
oSR-method	Get and set oSR
oSR<-	Get and set oSR
oSR<--method	Get and set oSR
processAssay	Process assay tab data
processAssay-method	Process assay tab data
readISATab	Read an ISA-Tab dataset into an R object.
sAssays	Get and set sAssays.
sAssays-method	Get and set sAssays.
sAssays<-	Get and set sAssays.
sAssays<--method	Get and set sAssays.
sContacts	Get and set sContacts.
sContacts-method	Get and set sContacts.
sContacts<-	Get and set sContacts.
sContacts<--method	Get and set sContacts.
sDD	Get and set sDD.
sDD-method	Get and set sDD.
sDD<-	Get and set sDD.
sDD<--method	Get and set sDD.
sFacts	Get and set sFacts.
sFacts-method	Get and set sFacts.
sFacts<-	Get and set sFacts.
sFacts<--method	Get and set sFacts.
sFiles	Get and set sFiles.
sFiles-method	Get and set sFiles.
sFiles<-	Get and set sFiles.
sFiles<--method	Get and set sFiles.
sProts	Get and set sProts.
sProts-method	Get and set sProts.
sProts<-	Get and set sProts.
sProts<--method	Get and set sProts.
sPubs	Get and set sPubs.
sPubs-method	Get and set sPubs.
sPubs<-	Get and set sPubs.
sPubs<--method	Get and set sPubs.
study	Get and set study.
study-method	Get and set study.
study<-	Get and set study.
study<--method	Get and set study.
validISAObject	Check the validity of an object of class ISA.
writeAssayFiles	Write ISA-Tab object.
writeInvestigationFile	Write ISA-Tab object.
writeISAtab	Write ISA-Tab object.
writeStudyFiles	Write ISA-Tab object.