Center of intensity QC plots

Description

Creates the fifth page of the QC report created by QCReport for an object of class AffyBatch The page contains plots showing the center of intensity of the border element of arrays in an AffyBatch object.

Usage

borderQC2(object)

Arguments

Details

This creates the fifth page of a QCReport report. Plots of the center of intensity of the positive and negative border elements of arrays in a AffyBatch object are shown. This plot is useful for detecting spatial biases in intensities on an array.

More details are available in the vignette.

Value

TRUE

Examples

   library(affydata)
    data(Dilution)

   borderQC2(Dilution)

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 'demo()' for some demos, 'help()' for on-line help, or
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> library(affyQCReport)
Loading required package: Biobase
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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: affy
Loading required package: lattice
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/affyQCReport/borderQC2.Rd_%03d_medium.png", width=480, height=480)
> ### Name: borderQC2
> ### Title: Center of intensity QC plots
> ### Aliases: borderQC2
> ### Keywords: hplot
> 
> ### ** Examples
> 
> 
>    library(affydata)
     Package    LibPath                            Item      
[1,] "affydata" "/home/ddbj/local/lib64/R/library" "Dilution"
     Title                        
[1,] "AffyBatch instance Dilution"
>     data(Dilution)
> 
>    borderQC2(Dilution)
[1] TRUE
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>