BScore normalization

Description

Normalization with BScores (see References).

Usage

BScore(header, dataset, listOfArgs)

Arguments

Value

A list containing:

References

C. Brideau, B. Gunter, B. Pikounis, and A. Liaw. Improved statistical methods for hit selection in high-throughput screening. J Biomol Screen, 8:634-647, 2003

Examples

data(exampleHeader, package="RNAither")
data(exampleDataset, package="RNAither")
normres <- BScore(header, dataset, list("SigIntensity", 0))
newheader <- normres[[1]]
newdataset <- normres[[2]]

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'license()' or 'licence()' for distribution details.

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Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(RNAither)
Loading required package: topGO
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: graph
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: GO.db
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums


Loading required package: SparseM

Attaching package: 'SparseM'

The following object is masked from 'package:base':

    backsolve


groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.

Attaching package: 'topGO'

The following object is masked from 'package:IRanges':

    members

Loading required package: RankProd
Loading required package: prada
Loading required package: RColorBrewer
Loading required package: grid

Attaching package: 'grid'

The following object is masked from 'package:topGO':

    depth

Loading required package: rrcov
Loading required package: robustbase

Attaching package: 'robustbase'

The following object is masked from 'package:Biobase':

    rowMedians

Scalable Robust Estimators with High Breakdown Point (version 1.3-11)


Attaching package: 'RNAither'

The following object is masked from 'package:IRanges':

    trim

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/RNAither/BScore.Rd_%03d_medium.png", width=480, height=480)
> ### Name: BScore
> ### Title: BScore normalization
> ### Aliases: BScore
> ### Keywords: manip
> 
> ### ** Examples
> 
> data(exampleHeader, package="RNAither")
> data(exampleDataset, package="RNAither")
> normres <- BScore(header, dataset, list("SigIntensity", 0))
> newheader <- normres[[1]]
> newdataset <- normres[[2]]
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>