API for simpleaffy
Very simple high level analysis of Affymetrix data

Global functions
qc.add.probe Man page
qc.add.ratio Man page
qc.add.spike Man page
qc.get.alpha1 Man page
qc.get.alpha2 Man page
qc.get.probe Man page
qc.get.probes Man page
qc.get.ratio Man page
qc.get.ratios Man page
qc.get.spike Man page
qc.get.spikes Man page
qc.get.tau Man page
qc.set.alpha1 Man page
qc.set.alpha2 Man page
qc.have.params Man page
qc.ok Man page
qc.read.file Man page
simpleaffy-deprecated Man page
PairComp-class Man page
QCStats-class Man page
[,PairComp-method Man page
[<-,PairComp-method Man page
all.present Man page Source code
all.present.in.group Man page Source code
arrayType Man page
arrayType,QCStats-method Man page
arrayType-method Man page
avbg Man page
avbg,QCStats-method Man page
avbg-method Man page
bg.correct.sa Man page Source code
bg.stats Source code
blue.white.red.cols Man page
calculated.from Man page
calculated.from,PairComp-method Man page
call.exprs Man page
calls Man page
calls,PairComp-method Man page
createEmptyQCEnvironment Source code
detection.p.val Man page Source code
f.probeset.not.found Source code
fc Man page
fc,PairComp-method Man page
get.annotation Man page Source code
get.array.def.file Source code
get.array.indices Man page
get.array.indices,AffyBatch-method Man page
get.array.indices,ExpressionSet-method Man page
get.array.subset Man page
get.array.subset,AffyBatch-method Man page
get.array.subset,ExpressionSet-method Man page
get.array.subset.affybatch Man page
get.array.subset.exprset Man page
get.fold.change.and.t.test Man page
getActin3 Man page Source code
getActin5 Man page Source code
getActinM Man page Source code
getAllQCProbes Man page Source code
getAllSpikeProbes Man page Source code
getAlpha1 Man page Source code
getAlpha2 Man page Source code
getBioB Man page Source code
getBioC Man page Source code
getBioD Man page Source code
getCreX Man page Source code
getGapdh3 Man page Source code
getGapdh5 Man page Source code
getGapdhM Man page Source code
getRatios Source code
getTao Man page Source code
group Man page
group,PairComp-method Man page
haveQCParams Man page Source code
hmap.eset Man page Source code
hmap.pc Man page Source code
journalpng Man page Source code
justMAS Man page Source code
maplot Source code
mas5 Source code
maxbg Man page
maxbg,QCStats-method Man page
maxbg-method Man page
means Man page
means,PairComp-method Man page
members Man page
members,PairComp-method Man page
minbg Man page
minbg,QCStats-method Man page
minbg-method Man page
nitializeQCEnvironment Source code
pData Man page
pData,PairComp-method Man page
pairwise.comparison Man page
pairwise.filter Man page Source code
pairwise.filter,PairComp-method Man page
pcscatterplot Source code
percent.present Man page
percent.present,QCStats-method Man page
percent.present-method Man page
plot,PairComp Man page
plot,PairComp,ANY-method Man page
plot,PairComp,PairComp-method Man page
plot,PairComp,missing-method Man page
plot,PairComp-method Man page
plot,QCStats Man page
plot,QCStats,ANY-method Man page
plot,QCStats,missing-method Man page
plot.pairwise.comparison Man page Source code
plot.qc.stats Man page Source code
qc Man page
qc,AffyBatch-method Man page
qc.add.probe Source code
qc.add.ratio Source code
qc.add.spike Source code
qc.affy Man page Source code
qc.file.addQCRatio Source code
qc.file.addQCSpike Source code
qc.file.setAlpha1 Source code
qc.file.setAlpha2 Source code
qc.file.setQCArray Source code
qc.get.alpha1 Source code
qc.get.alpha2 Source code
qc.get.array Man page Source code
qc.get.probe Source code
qc.get.probes Source code
qc.get.ratio Source code
qc.get.ratios Source code
qc.get.spike Source code
qc.get.spikes Source code
qc.get.tau Source code
qc.have.params Source code
qc.is.empty Source code
qc.ok Source code
qc.read.file Source code
qc.set.alpha1 Source code
qc.set.alpha2 Source code
qc.set.array Man page Source code
qc.set.empty Source code
qc.test Source code
qcProbes Man page
qcProbes,QCStats-method Man page
qcProbes-method Man page
qcs Man page
ratios Man page
ratios,QCStats-method Man page
ratios-method Man page
read.affy Man page Source code
read.affy.mixed Man page
red.black.green.cols Man page
red.yellow.white.cols Man page
results.summary Man page Source code
screenpng Man page Source code
setQCEnvironment Man page Source code
sfs Man page
sfs,QCStats-method Man page
sfs-method Man page
spikeInProbes Man page
spikeInProbes,QCStats-method Man page
spikeInProbes-method Man page
standard.pearson Man page Source code
strip.list Source code
target Man page
target,QCStats-method Man page
target-method Man page
trad.scatter.plot Man page
tt Man page
tt,PairComp-method Man page
volcanoplot Source code
write.annotation Man page Source code
simpleaffy documentation built on May 31, 2017, 11:37 a.m.