SDMFrame {ddCt} | R Documentation

## Read an SDM file

### Description

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

### Usage

      SDMFrame(file)
      readSDM(file)

### 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

    ## 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)

[Package ddCt version 1.38.0 Index]