![[R logo]](../../../doc/html/logo.jpg)
A B C E F G H I L M N P R S T X
| $.platformDesign | Class "platformDesign" |
| $.platformDesign, FeatureSet-method | Class "FeatureSet" |
| allele | Retrieve allele from PDEnv for SNP arrays |
| allele,FeatureSet-method | Class "FeatureSet" |
| as.data.frame.platformDesign | Coerce to a Data Frame |
| basecontent | Boxplot |
| bg.correct.rma | Background Correction |
| boxplot,FeatureSet-method | Class "FeatureSet" |
| characterOrNULL-class | Class "characterOrNULL" |
| cleanPlatformName | Naming PDEnvs |
| ExpressionFeatureSet-class | Subclasses of FeatureSet. |
| exprs, FeatureSet-method | Class "FeatureSet" |
| exprs,FeatureSet-method | Methods for FeatureSet objects |
| featureIndex | Indexes of features on the array |
| featureIndex,FeatureSet-method | Class "FeatureSet" |
| featureInfo | Platform Design Environment |
| FeatureSet-class | Class "FeatureSet" |
| geneNames,FeatureSet-method | Class "FeatureSet" |
| getPD | Platform Design accessor |
| getPlatformDesign | Platform Design accessor |
| getPlatformDesign,FeatureSet-method | Class "FeatureSet" |
| hist,FeatureSet-method | Class "FeatureSet" |
| i2xy | Index <-> XY |
| image,FeatureSet-method | Class "FeatureSet" |
| indexFeatureSetName | Indexes for feature sets. |
| indexFeatureSetName,FeatureSet-method | Class "FeatureSet" |
| initialize, FeatureSet-method | Methods for FeatureSet objects |
| initialize,AnnotatedDataFrame-method | Methods for Class Initialization |
| initialize,ANY-method | Methods for Class Initialization |
| initialize,environment-method | Methods for Class Initialization |
| initialize,eSet-method | Methods for Class Initialization |
| initialize,ExpressionSet-method | Methods for Class Initialization |
| initialize,FeatureSet-method | Methods for Class Initialization |
| initialize,signature-method | Methods for Class Initialization |
| initialize,SnpSet-method | Methods for Class Initialization |
| initialize,traceable-method | Methods for Class Initialization |
| initialize-methods | Methods for Class Initialization |
| length,FeatureSet-method | Class "FeatureSet" |
| list.celfiles | Functions to list CEL and XYS files. |
| list.xysfiles | Functions to list CEL and XYS files. |
| manufacturer | Accessors for FeatureSet objects. |
| manufacturer, FeatureSet-method | Class "FeatureSet" |
| manufacturer,FeatureSet-method | Methods for FeatureSet objects |
| manufacturer<-, FeatureSet-method | Class "FeatureSet" |
| manufacturer<-,FeatureSet-method | Methods for FeatureSet objects |
| mm | Accessors for perfect match (pm) and mismatch (mm) probes. |
| mm,FeatureSet-method | Class "FeatureSet" |
| mm<-,FeatureSet-method | Class "FeatureSet" |
| mmindex | Accessors for perfect match (pm) and mismatch (mm) probes. |
| mmindex,FeatureSet-method | Class "FeatureSet" |
| mmindex,platformDesign-method | Class "platformDesign" |
| mmSequence | Methods to deal with sequences. |
| names | Platform Design variables |
| names,platformDesign-method | Class "platformDesign" |
| ncol,FeatureSet-method | Class "FeatureSet" |
| normalize.FeatureSet.quantiles | Quantile Normalization Functions |
| normalize.quantiles | Quantile Normalization Functions |
| npixels | Accessors for FeatureSet objects. |
| npixels,FeatureSet-method | Class "FeatureSet" |
| nProbes | Number of probes on the array |
| nProbes,platformDesign-method | Class "platformDesign" |
| nrow | Accessors for the dimensions of the array |
| nrow,FeatureSet-method | Class "FeatureSet" |
| platform | Accessors for FeatureSet objects. |
| platform,FeatureSet-method | Class "FeatureSet" |
| platform<-, FeatureSet-method | Class "FeatureSet" |
| platform<-,FeatureSet-method | Methods for FeatureSet objects |
| platformDesign-class | Class "platformDesign" |
| platformDesignName | The platform design object name. |
| platformDesignName,FeatureSet-method | Class "FeatureSet" |
| plotDensity | Plot Densities |
| pm | Accessors for perfect match (pm) and mismatch (mm) probes. |
| pm,FeatureSet-method | Class "FeatureSet" |
| pm<-,FeatureSet-method | Class "FeatureSet" |
| pmindex | Accessors for perfect match (pm) and mismatch (mm) probes. |
| pmindex,FeatureSet-method | Class "FeatureSet" |
| pmindex,platformDesign-method | Class "platformDesign" |
| pmSequence | Methods to deal with sequences. |
| probeNames | Feature Set Names |
| probeNames, FeatureSet-method | Methods for FeatureSet objects |
| probeNames,FeatureSet,characterOrNULL-method | Probe Names |
| probeNames,FeatureSet-method | Class "FeatureSet" |
| probeNames,platformDesign,characterOrNULL-method | Probe Names |
| probeNames,platformDesign-method | Class "platformDesign" |
| probeNames-methods | Probe Names |
| read.affybatch | Affymetrix CEL files parser |
| read.celfiles | Affymetrix CEL files parser |
| read.xysfiles | XYS files parser. |
| readonexysfile | XYS files parser. |
| readxysHeader | XYS files parser. |
| rma | Robust multi-array average |
| sd,FeatureSet-method | Class "FeatureSet" |
| sequenceDesignMatrix | Methods to deal with sequences. |
| show,FeatureSet-method | Class "FeatureSet" |
| show,platformDesign-method | Class "platformDesign" |
| SnpFeatureSet-class | Subclasses of FeatureSet. |
| stuffForXYSandCELreaders | Affymetrix CEL files parser |
| TilingFeatureSet-class | Subclasses of FeatureSet. |
| type | Accessors for FeatureSet objects. |
| xy2i | Index <-> XY |