ddCt {prada} | R Documentation |
Apply the ddCt method for a given data set
ddCt(raw.table,calibrationSample,housekeepingGenes,type="mean",sampleInformation=NULL,toZero=FALSE,filename="warning.output.txt")
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) |
Please see vignette 'How to apply the ddCt method' in the ddCt package for details.
A an object of class
eSet
. Its eList
has the following names: exprs(the level), level.err,
Ct, Ct.error, dCt, dCt.error, ddCt, ddCt.error, Difference,
number_NA, number, Plate.
Markus Ruschhaupt mailto:m.ruschhaupt@dkfz.de
##see vignette rtPCR.pdf