RPPanalyzer (version 1.3)

calcLogistic: Calculates sample concentrations using sigmoid model fit

Description

Calculates sample concentrations of a RPPA data set, as wrapper for curveFitSigmoid.

Usage

calcLogistic(x, sample.id = c("sample", "sample.n"), dilution = "dilution",
xVal = NULL, plot = F, detectionLimit = F)

Arguments

x

x List containing RPPA data set

sample.id

character vector refering to column names from which samples can be separated

dilution

column name from the column in feature data that describes the dilution steps of each sample

xVal

defines the dilution value for which the concentration is calulated. If null the highest dilution value is used

plot

logical. If true dilution curves are plotted

detectionLimit

logical. If true model is fitted on dilution steps above the detection limit. If false, all data points are used to fit the model

Value

• expression
  matrix with protein expression data
• dummy
  matrix with protein expression data
• arraydescription
  data frame with feature data
• sampledescription
  data frame with pheno data

Examples

library(RPPanalyzer)
data(ser.dil.samples)

predicted.data <- calcLogistic(ser.dil.samples, sample.id=c("sample","sample.n"),
dilution="dilution")