annotation,PLMset-method | Class PLMset |
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 |
description,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.ExpressionSet.contrasts | Normalization applied to ExpressionSets |
normalize.ExpressionSet.invariantset | Normalization applied to ExpressionSets |
normalize.ExpressionSet.loess | Normalization applied to ExpressionSets |
normalize.ExpressionSet.methods | Normalization applied to ExpressionSets |
normalize.ExpressionSet.qspline | Normalization applied to ExpressionSets |
normalize.ExpressionSet.quantiles | Normalization applied to ExpressionSets |
normalize.ExpressionSet.scaling | Normalization applied to ExpressionSets |
normalize.quantiles.determine.target | Quantile Normalization using a specified target distribution vector |
normalize.quantiles.in.blocks | Quantile Normalization carried out separately within blocks of rows |
normalize.quantiles.use.target | Quantile Normalization using a specified target distribution vector |
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 |
pData,PLMset-method | Class PLMset |
pData<-,PLMset,data.frame-method | Class PLMset |
phenoData,PLMset-method | Class PLMset |
phenoData<-,PLMset,AnnotatedDataFrame-method | Class PLMset |
PLMset | Class PLMset |
PLMset-class | Class PLMset |
PLMset2exprSet | Convert a PLMset to an exprSet |
preprocess | Background correct and Normalize |
pset2eset | Convert a PLMset to an exprSet |
pseudoColorBar | Coloring pseudo chip images |
pseudoPalette | Coloring pseudo chip images |
ReadRMAExpress | Read RMAExpress computed expression values |
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 |