dotplotArrays {BeadExplorer}R Documentation

Plots a series of dotplots for BeadChip QC data

Description

Plots a series of dotplots for BeadChip QC data

Usage

dotplotArrays(beadData, beadQC, qc, col = NULL, currentcol = "black", meansym = 4, arraysym = 19, currentsym = 19, 
meansize = 1.5, arraysize = 1.5, currentsize = 1.5,  savegraph = "png", extension = "_Arrays", width = 1200, height = 800, 
legend = TRUE, verbose = TRUE, ...)

Arguments

beadData Object of class beadData-class
beadQC Object of class beadQC-class
qc data.frame generated by link{readQC}
col A vector of colours used for each array type
currentcol Colour to use for the current array
meansym Symbol to use for the mean
arraysym Symbol to use to represent each array
currentsym Symbol to use to represent the current array
meansize Size to use for the mean symbol
arraysize Size to use for the array symbol
currentsize Size to use for the current symbol
savegraph Character to specify the output type ("png","bmp" or "jpeg")
extension Character to add to the output file name
width Width in pixels of graph output
height Height in pixels of graph output
legend Logical, indicating if a legend should be added
verbose Logical, indicating if commentray should be used
... arguments passed to dotplotQC

Details

A graph of a dotplot of QC measures is produced. The function compares QC values for the current beadData and beadQC objects to QC values from previous run analyses that have been stored in the log file (qc). The function is similar to boxplotArrays except that the data is plotted as a dot plot rather than a box plot. This function is the choice where the number of previous analyses in the log file is small.

Value

None

Author(s)

Gareth Elvidge gareth.elvidge@well.ox.ac.uk

See Also

boxplotArrays, help

Examples

## Not run: 
data(examplebeadData)
data(examplebeadQC)
data(exampleQC)
dotplotArrays(examplebeadData, examplebeadQC, exampleQC)
## End(Not run)

[Package BeadExplorer version 1.2.0 Index]