calcLogistic {RPPanalyzer}R Documentation

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
expression_b matrix with protein expression data
arraydescription data frame with feature data
sampledescription data frame with pheno data

Author(s)

Heiko Mannsperger <h.mannsperger@dkfz.de>, Stephan Gade <s.gade@dkfz.de>

Examples


library(RPPanalyzer)
data(subsetdataI)

datlogistic <- calcLogistic(subsetdataI,sample.id=c("sample","sample.n")
                            ,dilution="dilution")

[Package RPPanalyzer version 1.0.2 Index]