WfmInf-class {waveTiling} | R Documentation |
class to store outputs from the inference in the wavelet-based transcriptome analysis.
## Accessors getAlpha(object) getDelta(object) getTwoSided(object) getSigProbes(object) getRegions(object) getGenomicRegions(object) getFDR(object) getEff(object) getVarEff(object)
object |
An instance of |
Objects can be created by calls of the form new("WfmInf", alpha, delta, two.sided, sigProbes, regions, GlocRegions, FDR, CI, eff, varEff)
.
alpha
:Object of class "numeric"
~~
delta
:Object of class "numeric"
~~
two.sided
:Object of class "numeric"
~~
sigProbes
:Object of class "list"
~~
regions
:Object of class "list"
~~
GlocRegions
:Object of class "list"
~~
FDR
:Object of class "matrix"
~~
CI
:Object of class "array"
~~
eff
:Object of class "matrix"
~~
varEff
:Object of class "matrix"
~~
genome.info
:Object of class "genomeInfo"
~~
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(object = "WfmFit")
: ...
signature(.Object = "WfmInf")
: ...
signature(object = "WfmInf")
: ...
signature(fit = "WfmFit", inf = "WfmInf")
: ...
signature(fit = "WfmFit", inf = "WfmInf")
: ...
signature(fit = "WfmFit", inf = "WfmInf")
: ...
In the following code snippets, x
is a WfmInf object.
getAlpha(x): Extract the alpha level of significance used in the wavelet-based analysis.
getDelta(x): Extract the threshold values used in the wavelet-based transcriptome analysis.
getTwoSided(x): Extract the direction of inference conducted in the wavelet-based transcriptome analysis.
getSigProbes(x): Extract the significant probe ids for the wavelet-based transcriptome analysis.
getRegions(x): Extract the significant regions from the wavelet-based transcriptome analysis. Regions are given in terms of the probe ids they map onto.
getGenomicRegions(x): Extract the significant genomic regions from the wavelet-based transcriptome analysis.
getFDR(x): Extract the FDR for each test in the wavelet-based transcriptome analysis.
getEff(x): Extract the estimated effects or contrasts of the wavelet-based transcriptome analysis.
getVarEff(x): Extract the estimated variances of the effects or contrasts in the wavelet-based transcriptome analysis.
getGenomeInfo(x): Extract the genomic information.
Kristof De Beuf <kristof.debeuf@ugent.be>
showClass("WfmInf") library(waveTilingData) data(leafdevInfCompare) tt1 <- getAlpha(leafdevInfCompare) tt2 <- getDelta(leafdevInfCompare) tt3 <- getTwoSided(leafdevInfCompare) tt4 <- getSigProbes(leafdevInfCompare) tt5 <- getRegions(leafdevInfCompare) tt6 <- getGenomicRegions(leafdevInfCompare) tt7 <- getFDR(leafdevInfCompare) tt8 <- getEff(leafdevInfCompare) tt9 <- getVarEff(leafdevInfCompare) tt10 <- getGenomeInfo(leafdevInfCompare)