class to store model fits with custom design in the wavelet-based transcriptome analysis.
Objects from the Class
Objects can be created by calls of the form new("WfmFitCustom").
Slots
betaWav:
Object of class "matrix" ~~
varbetaWav:
Object of class "matrix" ~~
smoothPar:
Object of class "matrix" ~~
varEps:
Object of class "numeric" ~~
dataOrigSpace:
Object of class "matrix" ~~
dataWaveletSpace:
Object of class "matrix" ~~
design.matrix:
Object of class "matrix" ~~
phenoData:
Object of class "data.frame" ~~
genome.info:
Object of class "genomeInfo" ~~
n.levels:
Object of class "numeric" ~~
probePosition:
Object of class "numeric" ~~
wave.filt:
Object of class "character" ~~
Kj:
Object of class "numeric" ~~
prior:
Object of class "character" ~~
F:
Object of class "matrix" ~~
varF:
Object of class "matrix" ~~
P:
Object of class "numeric" ~~
Z:
Object of class "matrix" ~~
noGroups:
Object of class "numeric" ~~
replics:
Object of class "numeric" ~~
Extends
Class "WfmFit", directly.
Methods
initialize
signature(.Object = "WfmFitCustom"): ...
show
signature(object = "WfmFitCustom"): ...
Author(s)
Kristof De Beuf <kristof.debeuf@ugent.be>
Examples
showClass("WfmFitCustom")
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(waveTiling)
Loading required package: oligo
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Loading required package: oligoClasses
Welcome to oligoClasses version 1.34.0
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: IRanges
Loading required package: XVector
================================================================================
Welcome to oligo version 1.36.1
================================================================================
Loading required package: GenomeGraphs
Loading required package: biomaRt
Loading required package: grid
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/waveTiling/WfmFitCustom-class.Rd_%03d_medium.png", width=480, height=480)
> ### Name: WfmFitCustom-class
> ### Title: Class "WfmFitCustom"
> ### Aliases: WfmFitCustom-class WfmFitCustom show,WfmFitCustom-method
> ### initialize,WfmFitCustom-method
> ### Keywords: classes
>
> ### ** Examples
>
> showClass("WfmFitCustom")
Class "WfmFitCustom" [package "waveTiling"]
Slots:
Name: betaWav varbetaWav smoothPar varEps
Class: matrix matrix matrix numeric
Name: dataOrigSpace dataWaveletSpace design.matrix phenoData
Class: matrix matrix matrix data.frame
Name: genome.info n.levels probePosition wave.filt
Class: GenomeInfo numeric vector character
Name: Kj prior F varF
Class: numeric character matrix matrix
Name: P Z noGroups replics
Class: numeric matrix numeric numeric
Extends: "WfmFit"
>
>
>
>
>
> dev.off()
null device
1
>