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| bg.correct.LESN | LESN - Low End Signal is Noise Background corrections |
| boxplot,PLMset-method | Class PLMset |
| cdfName,PLMset-method | Class PLMset |
| coefs | Class PLMset |
| coefs,PLMset-method | Class PLMset |
| coefs.const | Class PLMset |
| coefs.const,PLMset-method | Class PLMset |
| coefs.probe | Class PLMset |
| coefs.probe,PLMset-method | Class PLMset |
| coefs<-,PLMset-method | Class PLMset |
| fitPLM | Fit a Probe Level Model to Affymetrix Genechip Data. |
| getCdfInfo,PLMset-method | Class PLMset |
| image,PLMset-method | Class PLMset |
| indexProbes,PLMset,character-method | Class PLMset |
| indexProbesProcessed | Class PLMset |
| indexProbesProcessed,PLMset-method | Class PLMset |
| MAplot | Relative M vs. A plots |
| MAplot,PLMset-method | Relative M vs. A plots |
| Mbox | Class PLMset |
| Mbox,PLMset-method | Class PLMset |
| model.description | Class PLMset |
| model.description,PLMset-method | Class PLMset |
| normalize.AffyBatch.quantiles.probeset | Quantile Normalization applied to probesets |
| normalize.AffyBatch.scaling | Scaling normalization |
| normalize.exprSet.contrasts | Normalization applied to exprSets |
| normalize.exprSet.invariantset | Normalization applied to exprSets |
| normalize.exprSet.loess | Normalization applied to exprSets |
| normalize.exprSet.methods | Normalization applied to exprSets |
| normalize.exprSet.qspline | Normalization applied to exprSets |
| normalize.exprSet.quantiles | Normalization applied to exprSets |
| normalize.exprSet.scaling | Normalization applied to exprSets |
| normalize.scaling | Scaling normalization |
| normvec | Class PLMset |
| normvec,PLMset-method | Class PLMset |
| NUSE | Class PLMset |
| nuse | Class PLMset |
| NUSE,PLMset-method | Class PLMset |
| nuse,PLMset-method | Class PLMset |
| PLMset | Class PLMset |
| PLMset-class | Class PLMset |
| PLMset2exprSet | Convert a PLMset to an exprSet |
| pset2eset | Convert a PLMset to an exprSet |
| pseudoColorBar | Coloring pseudo chip images |
| pseudoPalette | Coloring pseudo chip images |
| resid,PLMset-method | Class PLMset |
| resid<-,PLMset-method | Class PLMset |
| residSE | Class PLMset |
| residSE,PLMset-method | Class PLMset |
| residuals,PLMset-method | Class PLMset |
| residuals<-,PLMset-method | Class PLMset |
| RLE | Class PLMset |
| RLE,PLMset-method | Class PLMset |
| rmaPLM | Fit a RMA to Affymetrix Genechip Data as a PLMset |
| sampleNames,PLMset-method | Class PLMset |
| sampleNames<-,PLMset-method | Class PLMset |
| se | Class PLMset |
| se,PLMset-method | Class PLMset |
| se.const | Class PLMset |
| se.const,PLMset-method | Class PLMset |
| se.probe | Class PLMset |
| se.probe,PLMset-method | Class PLMset |
| se<-,PLMset-method | Class PLMset |
| show,PLMset-method | Class PLMset |
| summary,PLMset-method | Class PLMset |
| threestep | Three Step expression measures |
| threestepPLM | Three Step expression measures returned as a PLMset |
| varcov | Class PLMset |
| varcov,PLMset-method | Class PLMset |
| weights,PLMset-method | Class PLMset |
| weights<-,PLMset-method | Class PLMset |