MIAME {Biobase} | R Documentation |
Class MIAME
covers MIAME entries that are not covered by other classes
in Bioconductor. Namely, experimental design, samples, hybridizations,
normalization controls, and pre-processing information. The MIAME
class
is derived from MIAxE
.
name
:character
containing the experimenter namelab
:character
containing the laboratory where the experiment was conductedcontact
:character
containing contact information for lab and/or experimentertitle
:character
containing a single-sentence experiment title abstract
:character
containing an abstract describing the experimenturl
:character
containing a URL for the experimentsamples
:list
containing information about the sampleshybridizations
:list
containing information about the hybridizationsnormControls
:list
containing information about the controls such as house keeping genespreprocessing
:list
containing information about the pre-processing steps used on the raw data from this experimentpubMedIds
:character
listing strings of PubMed identifiers of papers relevant to the datasetother
:list
containing other information for which none of the above slots does not appliesConstructor methods:
MIAME()
:MIAME(name = "", lab = "", contact = "",
title = "", abstract = "", url = "",
pubMedIds = "" , samples = "",
hybridizations = list(), normControls = list(),
preprocessing = list(), other = list())
:
Creates a new MIAME
object with slots as defined above.Class-specific methods:
abstract(MIAME)
:abstract
.combine(MIAME,MIAME)
:MIAME-class
, issuing warnings when ambiguities encountered.expinfo(MIAME)
:name
, lab
, contact
, title
, and url
.hybridizations(MIAME)
:hybridizations
.normControls(MIAME)
:normControls
.notes(MIAME), notes(MIAME) <- value
:other
. notes(MIAME) <- character
appends character to notes; use notes(MIAME) <- list
to replace the notes entirely.otherInfo(MIAME)
:other
.preproc(MIAME)
:preprocessing
.pubMedIds(MIAME), pubMedIds(MIAME) <- value
:pubMedIds
.samples(MIAME)
:samples
.updateObject(object, ..., verbose=FALSE)
updateObject
isCurrent(object)
isCurrent
isVersioned(object)
isVersioned
show(MIAME)
:Rafael A. Irizarry
http://www.mged.org/Workgroups/MIAME/miame_1.1.html
class:characterORMIAME
, read.MIAME