Agi4x44PreProcess-package | PreProcessing of Agilent 4x44 array data |
Agi4x44PreProcess | PreProcessing of Agilent 4x44 array data |
BGandNorm | Background Correction and Normalization Between Arrays |
BoxPlot | Boxplot |
boxplotNegCtrl | Boxplot of Signals and Negative Controls |
build.eset | ExpressionSet object from a RGList |
build.mappings | Creates data.frame with information mapped from the annotation package |
countFLAG | filter.probes (internal function) |
CV.rep.probes | Non-control replicated Probes identication |
dd | data example (RGList) |
ensembl.htmlpage | genes.rpt.agi (Internal function) |
filter.control | filter.probes (Internal function) |
filter.isfound | probes.filter (Internal function) |
filter.nas | probes.filter (Internal function) |
filter.NonUnifOL | probes.filter (Internal function) |
filter.PopnOL | probes.filter (Internal function) |
filter.probes | Filtering out probes |
filter.saturated | probes.filter (Internal function) |
filter.wellaboveBG | probes.filter (Internal function) |
filter.wellaboveNEG | probes.filter (Internal function) |
filterFLAG | probes.filter (Internal function) |
filterFLAGall | filter.probes (Internal function) |
filterNAS | probes.filter (Internal function) |
filterWellAboveSIGNALv2 | probes.filter (Internal function) |
genes.rpt.agi | Genes interrogated for different probes |
getTDRows3 | ensembl.htmlpage: (Internal function) |
gsea.files | Creates files for GSEA |
HeatMap | HeatMap |
hierclus | Hierarchical clustering |
MVAplotMED | MVA plot |
MVAplotMEDctrl | MVA plot |
paste.character | paste characters (Internal function) |
PCAplot | PCA plot |
plotDensity | Density Plots of Intensity Signals |
read.AgilentFE | Read Agilent Feature Extraction *.txt data files |
read.targets | read the target file |
RLE | Relative Log Expression |
subCHR | chr coordinates edition (Internal function) |
summarize.probe | Replicated Probes Summarization |
targets | Example of target file |
write.control.out | probes.filter (Internal function) |
write.eset | Writes the expression data matrix of an ExpressionSet object in a file |
write.filt.out | probes.filter (Internal function) |