Plot target and blank signal from RPPA control samples
Convert RPPA data into Expression Set
Read and Annotate RPPA rawdata
Calculates sample concentrations using sigmoid model fit
Multiplot function for RPPA time course datasets
qq-plot and qq-line of an RPPA data set
Reverse phase protein array data of siRNA transfected cell line
Tests for correlations in RPPA data
Calculates the concentration of serial diluted samples
Reverse phase protein array rawdata, samples serially diluted
Average biological replicates over different slides.
Draw time course from RPPA data
Data preprocessing
Remove arrays from a RPPA data list
Reverse phase protein array rawdata, samples serially diluted
Normalizes data in an RPPA data list
Estimates error model parameters var0 (basal variance) and varR (relative variance) and produces a new data.frame with the signals and error model parameters.
Selects samples from RPPA data
Logarithmize (log2) the first two RPPA list elements, i.e. foreground and background signal intensities
Selects the measurement samples from an RPPA data list
Draw a heatmap with column side colors from a RPPA data
slide description file
GenePix result files
Dilution series intersect correction
Reverse phase protein array data from original cancer specimen
Aggregate the replicates in an RPPA data set
Calculates sample concentrations using linear model fit
Select the highest concentration from serialy diluted samples
sample description file
Draws boxplots of groups of an RPPA data set including wilcox or kruskal test.
Sigmoidal curve prediction.
Draws boxplots of groups of an RPPA data set.
slide description file
writes an RPPA data list into csv file
Corrects for background in an RPPA data set
Scatter Plots from an RPPA data
sample description file
Read, annotate and normalize reverse phase protein array data and get a brief overview on the biological impact.
Reverse phase protein array data, samples from a stimulation time course