QDNAseqCopyNumbers {QDNAseq} | R Documentation

## Container for QDNAseq read count data

### Description

Container for QDNAseq read count data

### Assay data elements

An object of this class contains the following elements:

`copynumber`

  (`numeric`) Corrected "count" signals in [0,+∞) An object with only this field is created by `correctBins`().

`segmented`

  (`numeric`; optional) Segmented data in [0,+∞), added by calling `segmentBins`().

`calls`

  (`integer`; optional) Calls as -2=deletion, -1=loss, 0=normal, 1=gain, 2=amplification, added by calling `callBins`().

`probdloss`

  (`numeric`; optional) Probabilities of deletions in [0,1], added by calling `callBins`().

`probloss`

  (`numeric`; optional) Probabilities of losses in [0,1], added by calling `callBins`().

`probnorm`

  (`numeric`; optional) Probabilities of normal copy number in [0,1], added by calling `callBins`().

`probgain`

  (`numeric`; optional) Probabilities of gains in [0,1], added by calling `callBins`().

`probamp`

  (`numeric`; optional) Probabilities of amplifications in [0,1], added by calling `callBins`().

### Missing values

The bin data (assay data) may contain missing values.

### Author(s)

Ilari Scheinin

[Package QDNAseq version 1.16.0 Index]