API for affyPLM
Methods for fitting probe-level models
| Global functions | |
|---|---|
| .initAffyBatchFunctions | Source code |
| .initExprSetFunctions | Source code |
| .initNormfunctions | Source code |
| .onLoad | Source code |
| MAplot | Man page |
| MAplot,PLMset-method | Man page |
| Mbox | Man page |
| Mbox,PLMset-method | Man page |
| NUSE | Man page |
| NUSE,PLMset-method | Man page |
| PLM.designmatrix | Man page |
| PLM.designmatrix2 | Man page |
| PLM.designmatrix3 | Man page Source code |
| PLMset | Man page |
| PLMset-class | Man page |
| PLMset2exprSet | Man page Source code |
| RLE | Man page |
| RLE,PLMset-method | Man page |
| ReadRMAExpress | Man page Source code |
| annotation,PLMset-method | Man page |
| bg.correct.LESN | Man page Source code |
| bg.correct.gcrma | Man page Source code |
| bg.correct.shift | Man page Source code |
| bg.correct.stretch | Man page Source code |
| boxplot,PLMset-method | Man page |
| cdfName,PLMset-method | Man page |
| coefs | Man page |
| coefs,PLMset-method | Man page |
| coefs.const | Man page |
| coefs.const,PLMset-method | Man page |
| coefs.probe | Man page |
| coefs.probe,PLMset-method | Man page |
| coefs<- | Man page |
| coefs<-,PLMset-method | Man page |
| convert.LESN.param | Man page Source code |
| description,PLMset-method | Man page |
| fitPLM | Man page Source code |
| fitPLM.old | Man page |
| get.background.code | Man page Source code |
| get.default.psi.k | Man page Source code |
| get.normalization.code | Man page Source code |
| get.psi.code | Man page Source code |
| get.summary.code | Man page Source code |
| getCdfInfo,PLMset-method | Man page |
| image,PLMset-method | Man page |
| indexProbes,PLMset,character-method | Man page |
| indexProbesProcessed | Man page |
| indexProbesProcessed,PLMset-method | Man page |
| model.description | Man page |
| model.description,PLMset-method | Man page |
| normalize.AffyBatch.quantiles.chromosome | Man page Source code |
| normalize.AffyBatch.quantiles.probeset | Man page Source code |
| normalize.AffyBatch.scaling | Man page Source code |
| normalize.ExpressionSet.contrasts | Man page Source code |
| normalize.ExpressionSet.invariantset | Man page Source code |
| normalize.ExpressionSet.loess | Man page Source code |
| normalize.ExpressionSet.methods | Man page Source code |
| normalize.ExpressionSet.qspline | Man page Source code |
| normalize.ExpressionSet.quantiles | Man page Source code |
| normalize.ExpressionSet.scaling | Man page Source code |
| normalize.scaling | Man page Source code |
| normvec | Man page |
| normvec,PLMset-method | Man page |
| nuse | Man page |
| nuse,PLMset-method | Man page |
| pData,PLMset-method | Man page |
| pData<-,PLMset,data.frame-method | Man page |
| phenoData,PLMset-method | Man page |
| phenoData<-,PLMset,AnnotatedDataFrame-method | Man page |
| preprocess | Man page Source code |
| pset2eset | Man page Source code |
| pseudoColorBar | Man page |
| pseudoPalette | Man page |
| resid | Man page |
| resid,PLMset-method | Man page |
| resid<- | Man page |
| resid<-,PLMset-method | Man page |
| residSE | Man page |
| residSE,PLMset-method | Man page |
| residuals | Man page |
| residuals,PLMset-method | Man page |
| residuals<- | Man page |
| residuals<-,PLMset-method | Man page |
| rmaPLM | Man page Source code |
| sampleNames,PLMset-method | Man page |
| sampleNames<- | Man page |
| sampleNames<-,PLMset,character-method | Man page |
| se | Man page |
| se,PLMset-method | Man page |
| se.const | Man page |
| se.const,PLMset-method | Man page |
| se.probe | Man page |
| se.probe,PLMset-method | Man page |
| se<- | Man page |
| se<-,PLMset-method | Man page |
| show,PLMset-method | Man page |
| summary,PLMset-method | Man page |
| threestep | Man page Source code |
| threestepPLM | Man page Source code |
| varcov | Man page |
| varcov,PLMset-method | Man page |
| verify.bg.param | Man page Source code |
| verify.constraint.types | Man page Source code |
| verify.model.param | Man page Source code |
| verify.norm.param | Man page Source code |
| verify.output.param | Man page Source code |
| verify.variable.types | Man page Source code |
| weights | Man page |
| weights,PLMset-method | Man page |
| weights<- | Man page |
| weights<-,PLMset-method | Man page |
