ddCt {prada} | R Documentation

## Apply the ddCt method for a given data set

### Description

Apply the ddCt method for a given data set

### Usage

    ddCt(raw.table,calibrationSample,housekeepingGenes,type="mean",sampleInformation=NULL,toZero=FALSE,filename="warning.output.txt")

### Arguments

`raw.table` | data frame. It must contain columns with the following names:'Ct','Sample','Detector','Platename'. The column 'Ct' must contain numeric values.
`calibrationSample` | character. Name of the calibration samples.
`housekeepingGenes` | character. Name of the housekeeping genes.
`sampleInformation` | if specified it must be an object of class `phenoData` with a column named 'Sample'.
`filename` | character of length 1. The name of the file the warnings should be stored in.
`type` | character of length 1. `mean` or `median`- which method should be used for the aggregation of the repicates
`toZero` | boolean - if there is only one replication should the error be treated as zero ? (only if 'type' is mean)

### Details

Please see vignette 'How to apply the ddCt method' in the ddCt package for details.

### Value

A an object of class `eSet`. The assayData has the following components: exprs(the level), level.err, Ct, Ct.error, dCt, dCt.error, ddCt, ddCt.error, Difference, number_NA, number, Plate.

### Author(s)

Markus Ruschhaupt mailto:m.ruschhaupt@dkfz.de

### See Also

`readSDM`,`eListWrite`

### Examples

    ##see vignette rtPCR.pdf

[Package prada version 1.10.1 Index]