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Last data update: 2014.03.03

R: Plot of a well plate

plotPlate

R Documentation

Plot of a well plate

Description

Plot of a well plate directly from a file using a lattice xyplot

Usage

  plotPlate(file, labels = NULL,
    fileParser = readYeastGrower,
    getWellIds = getWellIdsTecan, calibration = identity,
    extractRowColumn = getRowColumn, cex = 0.05,
    scaleX = 1, scaleY = log2, strip.lines = 1.05,
    strip.cex = 0.8, xlab = "time", ylab = "log2(OD)",
    main = basename(file),
    scales = list(x = list(rot = 45)), ...)

Arguments

`file`	file name
`labels`	`vector` of characters indicating the label of the wells
`fileParser`	the file parser which reads the file generated by the machine
`getWellIds`	function or vector. If getWellIds is a function its parameter is the parsed data of the file parsed by `fileParser`. It should return a vector containing the well identifiers, e.g. A01, A02, .. You can as well set the well identifiers as a vector directly
`calibration`	calibration function applied to the raw data (before scaleY is applied)
`extractRowColumn`	function which converts well identifiers into row and column names
`cex`	plot parameter
`scaleX`	factor which scales the x-axis
`scaleY`	function how to convert the y-axis ( e.g. log2 )
`strip.lines`	height in lines of the labels
`strip.cex`	text-size of the labels
`xlab`	plot parameter
`ylab`	plot parameter
`main`	plot parameter
`scales`	plot parameter
`...`	optional plot parameter. See details

Details

All plot parameters are passed to the xyplot function

Author(s)

Andreas Neudecker

Examples

plotPlate( system.file("extdata", "tecan_genios.txt", package="cellGrowth"), fileParser=readGenios)

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 'demo()' for some demos, 'help()' for on-line help, or
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> library(cellGrowth)
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/cellGrowth/plotPlate.Rd_%03d_medium.png", width=480, height=480)
> ### Name: plotPlate
> ### Title: Plot of a well plate
> ### Aliases: plotPlate
> 
> ### ** Examples
> 
> plotPlate( system.file("extdata", "tecan_genios.txt", package="cellGrowth"), fileParser=readGenios)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>