Read an SDM file

Description

Read an SDM file: Data Output File for SDS, Version 2.1

Usage

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Arguments

file

Character vector of filenames

Details

This function reads the data given in the colums 'Detector','Sample' and 'Ct' of the specified SDM output file(s) and stores them as a data.frame. An additional column including the respective filename is added.

This function is a wrapper for the SDMFrame constructor

Value

A object of class SDMFrame

Author(s)

Rudolf Biczok mailto:r.biczok@dkfz.de

Examples

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## read a SDM file
sampdat <- SDMFrame(system.file("extdata", "Experiment1.txt",
                                package="ddCt"))
## you can also write 
## sampdat <- new("SDMFrame",system.file("extdata", "Experiment1.txt",
##                                       package="ddCt"))

## or with
## sampdat <- readSDM(system.file("extdata", "Experiment1.txt",
##                                package="ddCt"))

## use the getter methods
sampleNames(sampdat)

## or the overloaded primitive accessors
sampdat[1:3,"Sample"]

## see all unique samples
uniqueSampleNames(sampdat)

## replace all sample names 'Sample1' and 'Sample2' in sampdat
## with 'NewSample1' and 'NewSample2'
uniqueSampleNames(sampdat,c("Sample1","Sample2")) <- c("NewSample1","NewSample2")
uniqueSampleNames(sampdat)

## or use this syntax to replace the gene names
uniqueDetectorNames(sampdat) <- c(Gene1="NewGene1", Gene2="NewGene2")
uniqueDetectorNames(sampdat)