Man pages for RPPanalyzer
Reads, Annotates, and Normalizes Reverse Phase Protein Array Data
| averageData | Average biological replicates over different slides. |
| calcLinear | Calculates sample concentrations using linear model fit |
| calcLogistic | Calculates sample concentrations using sigmoid model fit |
| calcSdc | Calculates the concentration of serial diluted samples |
| correctBG | Corrects for background in an RPPA data set |
| correctDilinterc | Dilution series intersect correction |
| curvePredictSigmoid | Sigmoidal curve prediction. |
| dataI | Reverse phase protein array rawdata, samples serially diluted |
| dataII | Reverse phase protein array data, samples from a stimulation... |
| dataIII | Reverse phase protein array data from original cancer... |
| dataPreproc | Data preprocessing |
| getErrorModel | Estimates error model parameters var0 (basal variance) and... |
| HKdata | Reverse phase protein array data of siRNA transfected cell... |
| logList | Logarithmize (log2) the first two RPPA list elements, i.e.... |
| normalizeRPPA | Normalizes data in an RPPA data list |
| pick.high.conc | Select the highest concentration from serialy diluted samples |
| plotMeasurementsQC | Scatter Plots from an RPPA data |
| plotQC | Plot target and blank signal from RPPA control samples |
| plotqq | qq-plot and qq-line of an RPPA data set |
| plotTimeCourse | Draw time course from RPPA data |
| plotTimeCourseII | Multiplot function for RPPA time course datasets |
| read.Data | Read and Annotate RPPA rawdata |
| remove.arrays | Remove arrays from a RPPA data list |
| rppa2boxplot | Draws boxplots of groups of an RPPA data set including wilcox... |
| rppaList2ExpressionSet | Convert RPPA data into Expression Set |
| rppaList2Heatmap | Draw a heatmap with column side colors from a RPPA data |
| rppanalyzer-package | Read, annotate and normalize reverse phase protein array data... |
| S1.gpr | GenePix result files |
| sampledescription.old | sample description file |
| sampledescription.txt | sample description file |
| sample.median | Aggregate the replicates in an RPPA data set |
| select.measurements | Selects the measurement samples from an RPPA data list |
| select.sample.group | Selects samples from RPPA data |
| ser.dil.samples | Reverse phase protein array rawdata, samples serially diluted |
| simpleBoxplot | Draws boxplots of groups of an RPPA data set. |
| slidedescription.old | slide description file |
| slidedescription.txt | slide description file |
| test.correlation | Tests for correlations in RPPA data |
| write.Data | writes an RPPA data list into csv file |
