addProbeTypeAndChipTypeToRGGenes | Adds the probe and chipType to the RG$genes table based on... |
calcMeanValueOfSpots | Calculates the mean or median value of the spots on a chip by... |
calcTS | Calculates the optimal table size for displaying a data.frame... |
createGVisTableFromDF | Calculates the optimal table size for displaying a data.frame... |
extractNetIntensityValues | Extracts the Net Intensity Values by the identfier: Net... |
filterSpotsBySpikeIn | Filtering of spot values by the condition PM > MM and spot... |
loadLibraryAs | Loads a R object with a given name into a desired environment |
modifyAnalysis | Modifies the analysis Template |
normalizeTwoColorArray | Normalizes a RG object by a given method (eather vsn or... |
orderTwoColorArray | Order by a given name |
performAnalysis1_0 | Perform an analysis on the First 1.0 chip |
performAnalysis2_0 | Perform an analysis on the Second 2.0 chip |
performAnalysis2_1 | Perform an analysis on the 2.1 chip |
performDiffExpAnalysis | Performs a differential expression analysis via limma |
plotBoxDensityFromRG | A plot is created as a combination of Boxplot and Density... |
plotMAofArrays | This function creates a ggplot object where MA plots of all... |
readAndProcessChipData | Reads and processes the gpr files of two channel arrays.... |
readAndProcessChipData2_1 | Reads and processes the gpr files of two channel arrays For... |
readAndProcessChipDataFirstChip | Reads and processes the gpr files of two channel arrays.... |
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