MethyLumiQC-class {methylumi} | R Documentation |
"MethyLumiQC"
for holding Illumina methylation QC dataThis class inherits from the MethyLumi class (and therefore, from eSet in Biobase) and is designed to hold QC data from Illumina Beadstudio output. These data can be potentially useful when determining the cause for quality problems.
Objects can be created by calls of the form new("MethyLumiQC", assayData, phenoData, featureData, experimentData, annotation, betas)
.
assayData
:Object of class "AssayData"
phenoData
:Object of class "AnnotatedDataFrame"
featureData
:Object of class
"AnnotatedDataFrame"
containing the annotation columns from
the Illumina Beadstudio output. In particular, the names of the
probes describe the types of control probes.
experimentData
:Object of class "MIAME"
annotation
:Object of class "character"
, not
currently used
.__classVersion__
:Object of class "Versions"
Class "MethyLumi"
, directly.
Class "eSet"
, by class "MethyLumi", distance 2.
Class "VersionedBiobase"
, by class "MethyLumi", distance 3.
Class "Versioned"
, by class "MethyLumi", distance 4.
signature(.Object = "MethyLumiQC")
signature(object = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC", value = "matrix")
: ...
signature(object = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC", value = "matrix")
: ...
signature(object = "MethyLumiSet", value = "MethyLumiQC")
: ...
signature(x = "MethyLumiQC", y = "MethyLumiQC")
: ...
signature(object = "MethyLumiSet", value = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC")
:
determine the character vector of control types from the QCdata information
signature(x = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC", channel = "character")
: ...
signature(object = "MethyLumiQC", channel = "missing")
: ...
signature(object = "MethyLumiQC", channel = "character")
: ...
signature(object = "MethyLumiQC", channel = "missing")
: ...
signature(object = "MethyLumiQC", channel = "character")
: ...
signature(object = "MethyLumiQC", channel = "missing")
: ...
signature(object = "MethyLumiQC")
: ...
signature(object = "MethyLumiQC", what, ...)
:
QC plots of various controltypes
signature(object = "MethyLumiQC")
: ...
Sean Davis <sdavis2@mail.nih.gov>
methylumiR
, MethyLumiSet
,
MethyLumi
, eSet
showClass("MethyLumiQC")