plotPlate: Plot of a well plate

In cellGrowth: Fitting cell population growth models

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)

cellGrowth documentation built on Oct. 31, 2019, 8:38 a.m.