Non-documented objects

bgAdjustGcrma.AffymetrixCelFile

bgAdjustGcrma.AffymetrixCelSet

bgAdjustOptical.AffymetrixCelFile

bgAdjustRma.AffymetrixCelFile

ASCRMAv2

AffymetrixAptSummaryFile

AffymetrixCnChpFile

AffymetrixCsvFile

AffymetrixCsvGenomeInformation

AffymetrixNetAffxCsvFile

AffymetrixPlatform

AffymetrixTabularFile

AffymetrixTsvFile

AromaAffymetrix

AromaCellMatchScoreFile

AromaPipeline

AromaUfcFile

ChipEffectSetTuple

CnChipEffectSetTuple

CrlmmModel

Env2Cdf

SmoothSaModel

SpatialRowColumnNormalization

Transform

UflSnpInformation

addColorMap

addColorMap.ArrayExplorer

addColorMap.SpatialReporter

addExclCells

addExclCells.DChipQuantileNormalization

allocate.AromaCellMatchScoreFile

allocate.CrlmmParametersFile

allocateFromCdf

allocateFromCdf.AromaCellCpgFile

allocateFromCdf.AromaCellMatchScoreFile

allocateFromCdf.AromaCellPositionFile

allocateFromCdf.AromaCellSequenceFile

allocateFromCdf.AromaUfcFile

allocateFromCdf.AromaUflFile

allocateFromCdf.AromaUnitGcContentFile

annotateMvsA

annotateMvsA.AffymetrixCelFile

append.AffymetrixCelSet

append.CnagCfhSet

applyAnyOrder

applyAnyOrder.CopyNumberChromosomalModel

applyCCF0

applyCCF0.CopyNumberChromosomalModel

applyCFC0

applyCFC0.CopyNumberChromosomalModel

applyToUnitIntensities

applyToUnitIntensities.AffymetrixCelSet

as.AffymetrixCelSet

as.AffymetrixCnChpSet

as.AffymetrixFileSet

as.ChipEffectSetTuple

as.ChipEffectSetTuple.ChipEffectSetTuple

as.ChipEffectSetTuple.default

as.CnChipEffectSetTuple

as.CnChipEffectSetTuple.CnChipEffectSetTuple

as.CnChipEffectSetTuple.default

as.CnagCfhSet

as.CopyNumberDataSetTuple.CnChipEffectSet

as.DChipDcpSet

as.character.AffymetrixCdfFile

as.character.AffymetrixCelFile

as.character.AffymetrixCelSetReporter

as.character.AffymetrixCnChpFile

as.character.AffymetrixPgfFile

as.character.AffymetrixProbeTabFile

as.character.AromaChipTypeAnnotationFile

as.character.ArrayExplorer

as.character.ChipEffectFile

as.character.ChipEffectSet

as.character.CnagCfhFile

as.character.DChipCdfBinFile

as.character.DChipDcpFile

as.character.DChipQuantileNormalization

as.character.FirmaModel

as.character.GenericReporter

as.character.GenomeInformation

as.character.Model

as.character.ProbeAffinityFile

as.character.QualityAssessmentModel

as.character.ResidualFile

as.character.ResidualSet

as.character.SmoothMultiarrayModel

as.character.SnpInformation

as.character.SpatialReporter

as.character.TransformReport

as.character.WeightsFile

as.character.WeightsSet

assertAnnotationData

assertAnnotationData.ASCRMAv2

averageQuantile

bgAdjustGcrma

bgAdjustOptical

bgAdjustRma

boxplotStats

This page contains aliases for all "non-documented" objects that
 <code>R CMD check</code> detects in this package. Almost all of them are generic functions that have specific
 document for the corresponding method coupled to a specific class.
 Other functions are re-defined by <code>setMethodS3()</code> to
 default methods. Neither of these two classes are non-documented
 in reality.
 The rest are deprecated methods.

internal

documentation

A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system.  The only parameter that limits the number of chips that can be processed is the amount of available disk space.  The Aroma Framework has successfully been used in studies to process tens of thousands of arrays.  This package has actively been used since 2006.

Henrik Bengtsson

aroma.affymetrix

Analysis of Large Affymetrix Microarray Data Sets

Non-documented objects function

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Non-documented objects: Non-documented objects

Description

Arguments