WaveTilingFeatureSet-class {waveTiling} | R Documentation |
Class to store expression and phenotypic data from a tiling array experiment, used as input for the wavelet-based transcriptome analysis.
## Accessors getGroupNames(object) getNoGroups(object) getReplics(object)
object |
An instance of |
Objects can be created by calls of the form new("WaveTilingFeatureSet")
.
manufacturer
:Object of class "character"
~~
intensityFile
:Object of class "character"
~~
assayData
:Object of class "AssayData"
~~
phenoData
:Object of class "AnnotatedDataFrame"
~~
featureData
:Object of class "AnnotatedDataFrame"
~~
experimentData
:Object of class "MIAME"
~~
annotation
:Object of class "character"
~~
protocolData
:Object of class "AnnotatedDataFrame"
~~
.__classVersion__
:Object of class "Versions"
~~
Class "TilingFeatureSet"
, directly.
Class "FeatureSet"
, by class "TilingFeatureSet", distance 2.
Class "NChannelSet"
, by class "TilingFeatureSet", distance 3.
Class "eSet"
, by class "TilingFeatureSet", distance 4.
Class "VersionedBiobase"
, by class "TilingFeatureSet", distance 5.
Class "Versioned"
, by class "TilingFeatureSet", distance 6.
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
signature(object = "WaveTilingFeatureSet")
: ...
In the following code snippets, x
is a WaveTilingFeatureSet object. The described accessors are specific for WaveTilingFeatureSet
-class objects. Other inherited accessors work as expected on this class.
getGroupNames(x): Extract the group or sample names in the tiling array experiment.
getNoGroups(x): Extract the number of groups or samples in the tiling array experiment.
getReplics(x): Extract the number of replicates in the tiling array experiment.
Kristof De Beuf <kristof.debeuf@ugent.be>
showClass("WaveTilingFeatureSet") library(waveTilingData) data(leafdev) leafdev <- as(leafdev,"WaveTilingFeatureSet") leafdev <- addPheno(leafdev,noGroups=6,groupNames=c("day8","day9","day10","day11","day12","day13"),replics=rep(3,6)) tt1 <- getGroupNames(leafdev) tt2 <- getNoGroups(leafdev) tt3 <- getReplics(leafdev)