QDNAseqCopyNumbers: 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
$[0,+\infty)$ An object with only this field is created by
correctBins(). segmented- (
numeric; optional) Segmented data in
$[0,+\infty)$, 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.