geneNames,AffySNPPDInfo-method |
Internals |
geneNames,ExpressionPDInfo-method |
Internals |
geneNames,FeatureSet-method |
Internals |
geneNames,platformDesign-method |
Internals |
geneNames,TilingPDInfo-method |
Internals |
genomeBuild |
Genome Build Information |
genomeBuild,FeatureSet-method |
Genome Build Information |
genomeBuild,PDInfo-method |
Genome Build Information |
genomeBuild,TilingFeatureSet-method |
Genome Build Information |
geometry |
List fields in the (pm/mm)feature table |
geometry,PDInfo-method |
List fields in the (pm/mm)feature table |
getA |
Compute average log-intensities / log-ratios |
getA,SnpCnvQSet-method |
Compute average log-intensities / log-ratios |
getA,SnpQSet-method |
Compute average log-intensities / log-ratios |
getChrXIndex |
Internals |
getCrlmmSummaries |
Function to get CRLMM summaries saved to disk |
getGenotypeRegionParams |
Internals |
getM |
Compute average log-intensities / log-ratios |
getM,SnpCnvQSet-method |
Compute average log-intensities / log-ratios |
getM,SnpQSet-method |
Compute average log-intensities / log-ratios |
getM,TilingQSet-method |
Compute average log-intensities / log-ratios |
getPD |
Retrieve Platform Design object |
getPlatformDesign |
Retrieve Platform Design object |
getPlatformDesign,FeatureSet-method |
Retrieve Platform Design object |
getSnpFragmentLength |
Internals |
manufacturer |
Accessor to the manufacturer slot. |
manufacturer,FeatureSet-method |
Accessor to the manufacturer slot. |
manufacturer,PDInfo-method |
Accessor to the manufacturer slot. |
manufacturer<-,FeatureSet-method |
Accessor to the manufacturer slot. |
MAplot |
MA plots |
MAplot,FeatureSet-method |
MA plots |
MAplot-methods |
MA plots |
mm |
Accessor to the PM/MM matrices |
mm,FeatureSet-method |
Accessor to the PM/MM matrices |
mm<-,FeatureSet,BufferedMatrix-method |
Accessor to the PM/MM matrices |
mm<-,FeatureSet,matrix-method |
Accessor to the PM/MM matrices |
mmindex |
Extract PM or MM indexes |
mmindex,AffySNPPDInfo-method |
Extract PM or MM indexes |
mmindex,ExpressionPDInfo-method |
Extract PM or MM indexes |
mmindex,FeatureSet-method |
Extract PM or MM indexes |
mmindex,platformDesign-method |
Extract PM or MM indexes |
mmindex,TilingPDInfo-method |
Extract PM or MM indexes |
mmSequence |
Probe Sequeces |
mmSequence,AffySNPPDInfo-method |
Probe Sequeces |
mmSequence,FeatureSet-method |
Probe Sequeces |
mmSequence,platformDesign-method |
Probe Sequeces |
PDInfo-class |
Classes "PDInfo" and "SNPPDInfo" |
platform |
Retrieve/replace platform information |
platform,FeatureSet-method |
Retrieve/replace platform information |
platform<-,FeatureSet-method |
Retrieve/replace platform information |
platformDesign-class |
Class "platformDesign" |
platformDesignName |
Internals |
platformDesignName,FeatureSet-method |
Internals |
plotM |
Methods for Log-Ratio plotting |
plotM,SnpQSet,character-method |
Methods for Log-Ratio plotting |
plotM,SnpQSet,integer-method |
Methods for Log-Ratio plotting |
plotM,SnpQSet,numeric-method |
Methods for Log-Ratio plotting |
plotM,TilingQSet,missing-method |
Methods for Log-Ratio plotting |
plotM-methods |
Methods for Log-Ratio plotting |
pm |
Accessor to the PM/MM matrices |
pm,FeatureSet-method |
Accessor to the PM/MM matrices |
pm,SnpCnvFeatureSet-method |
Accessor to the PM/MM matrices |
pm<-,FeatureSet,BufferedMatrix-method |
Accessor to the PM/MM matrices |
pm<-,FeatureSet,matrix-method |
Accessor to the PM/MM matrices |
pmAllele |
Access the allele information for PM probes. |
pmAllele,AffySNPPDInfo-method |
Access the allele information for PM probes. |
pmAllele,PDInfo-method |
Access the allele information for PM probes. |
pmAllele,SnpFeatureSet-method |
Access the allele information for PM probes. |
pmChr |
Accessor for chromosome information |
pmChr,TilingFeatureSet-method |
Accessor for chromosome information |
pmindex |
Extract PM or MM indexes |
pmindex,AffySNPCNVPDInfo-method |
Extract PM or MM indexes |
pmindex,AffySNPPDInfo-method |
Extract PM or MM indexes |
pmindex,ExpressionPDInfo-method |
Extract PM or MM indexes |
pmindex,FeatureSet-method |
Extract PM or MM indexes |
pmindex,platformDesign-method |
Extract PM or MM indexes |
pmindex,SnpCnvFeatureSet-method |
Extract PM or MM indexes |
pmindex,TilingPDInfo-method |
Extract PM or MM indexes |
pmOffset |
Accessor to position information |
pmOffset,AffySNPPDInfo-method |
Accessor to position information |
pmPosition |
Accessor to position information |
pmPosition,ExpressionPDInfo-method |
Accessor to position information |
pmPosition,TilingFeatureSet-method |
Accessor to position information |
pmPosition,TilingPDInfo-method |
Accessor to position information |
pmSequence |
Probe Sequeces |
pmSequence,AffySNPCNVPDInfo-method |
Probe Sequeces |
pmSequence,AffySNPPDInfo-method |
Probe Sequeces |
pmSequence,ExpressionPDInfo-method |
Probe Sequeces |
pmSequence,FeatureSet-method |
Probe Sequeces |
pmSequence,platformDesign-method |
Probe Sequeces |
pmSequence,TilingPDInfo-method |
Probe Sequeces |
pmStrand |
Accessor to the strand information |
pmStrand,AffySNPPDInfo-method |
Accessor to the strand information |
position,SnpCallSet-method |
Accessor to position information |
position,TilingFeatureSet-method |
Accessor to position information |
probeNames |
Accessor to feature names |
probeNames,AffySNPPDInfo-method |
Accessor to feature names |
probeNames,ExpressionPDInfo-method |
Accessor to feature names |
probeNames,FeatureSet-method |
Accessor to feature names |
probeNames,platformDesign-method |
Accessor to feature names |
probeNames,TilingPDInfo-method |
Accessor to feature names |