adapcheckdatainput: Check properties of input data

In schaarschmidt/mixADA: Normalization, mixture models and screening cutpoints for anti-drug-antibody reactions

Description

For internal use in the mixADA GUI.

Usage

adapcheckdatainput(dat, response, treatment, runsnorm, sampleID,
 normalizeby, forfitting, runsmodel = NULL, spiked = NULL)

adapcheckdatainputsimple(dat, response, treatment, sampleID, forfitting,
 runsmodel = NULL, spiked = NULL)

Arguments

dat	a data.frame
response	a single character string, naming a column with numeric entries in dat
treatment	a single character string, naming a column (factor) in dat
runsnorm	a character string or vector, naming those columns (factors) in dat that, after combining factor levels, uniquely identify technical units within which normalization should take place
sampleID	a character string or vector, naming those columns (factors) in dat that, after combining factor levels, uniquely identify biological samples
normalizeby	a character string naming the level in dat[,treatment] which is supposed to serve as negative control for normalization, within each technical unit
forfitting	a character string naming the level in dat[,treatment], which define that subset of data for which mixture models are to be fitted (the unspiked data, if spiked data are in dat)
runsmodel	a character string or vector, naming those columns (factors) in dat, that, after combining factor levels, will define the variance component of technical units in mixed effects and mixture model fitting
spiked	a character string naming the level in dat[,treatment], which define that subset of data which is to be used for CCP estimation together with that in forfitting

Details

Checks input data for completeness, appropriate properties of specified columns, combines severeal factors to one nwe factor if needed and ought to give comprehensive warnings and errors if data format is insufficient for later use in normalization, model fitting, etc.

Value

a list with elements

DATINT	The input data set with additional columns specifying subset for later use in normalization, model fitting, CCP estimation
normTAB	a table with sample sizes of negative controles for normalization in each technical unit
textnormunit	character string, for labelling output in mixADA GUI
textnormlev	character string, for labelling output in mixADA GUI

schaarschmidt/mixADA documentation built on May 29, 2019, 3:25 p.m.