cellGrowth (version 1.16.0)

plotPlate: 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

Examples

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