Functions to Plot Density and RNA Degradation Plots

Description

These functions make density and RNA degradation plots with automatic placement of legends.

Usage

plotDeg(dat, filenames = NULL)

Arguments

Value

These functions are called only for the side effect of making the plots. Nothing else is returned.

Author(s)

James W. MacDonald <jmacdon@u.washington.edu>

Examples

library("affydata")
data(Dilution)
plotDeg(Dilution)
plotHist(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)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
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(affycoretools)
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")'.




Attaching package: 'affycoretools'

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

    plotPCA

Warning message:
replacing previous import 'ggplot2::Position' by 'BiocGenerics::Position' when loading 'ggbio' 
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/affycoretools/plotDeg.Rd_%03d_medium.png", width=480, height=480)
> ### Name: plotDeg
> ### Title: Functions to Plot Density and RNA Degradation Plots
> ### Aliases: plotDeg plotHist
> ### Keywords: hplot
> 
> ### ** Examples
> 
> 
> library("affydata")
Loading required package: affy
     Package    LibPath                            Item      
[1,] "affydata" "/home/ddbj/local/lib64/R/library" "Dilution"
     Title                        
[1,] "AffyBatch instance Dilution"
> data(Dilution)
> plotDeg(Dilution)

Warning messages:
1: replacing previous import 'AnnotationDbi::tail' by 'utils::tail' when loading 'hgu95av2cdf' 
2: replacing previous import 'AnnotationDbi::head' by 'utils::head' when loading 'hgu95av2cdf' 
> plotHist(Dilution)
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>