calcLogistic: Calculates sample concentrations using sigmoid model fit

In RPPanalyzer: Reads, Annotates, and Normalizes Reverse Phase Protein Array Data

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

Author(s)

Heiko Mannsperger <[e-mail]>, Stephan Gade <[e-mail]>

Examples

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

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

RPPanalyzer documentation built on May 2, 2019, 6:10 p.m.