An object of class flowFrame that contains the data to be
plotted.
child
An optional argument of class filterResult that
specifies a subset of the data that are included in the filterResult
filter
A filter, filterResult or
filterResultList object.
plotParameters
A vector of charactors defining the x and y variables
in terms of columns in the data.
logx,logy
Logical controlling wheterh the corresponding variables
will be log transfromed before passing to the panel function. Default to
FALSE.
parent
An optional argument of class filterResult that
specifies a subset of the data that are inclueed in the filterResult.
colParent
Specifying the color for parent. See parent
above.
colChild
Specifies the color for child. See chile
above.
showFilter
Logical, specifying whether to show the filter.
gate.fill
Specifies the fill color of the gate. Default to
transparent.
gate.border
Character or specifying the color of the gate border.
Default to black.
xlab,ylab
Labels for data axes.
xlim,ylim
Numeric vectors of length 2 specifying axis limits.
...
More arguments, usually passed on to the underlying lattice
methods.
Details
The plot that is most commonly used in flow cytometry data analysis is
usuall called a "dot plot". In common statistical language, we would call
this a scatter plot. The basic idea is a 2-dimensional plot that shows the
location of every cell in regard to the measurements made on it, for
example, forward scatter vs side scatter. Most applications will, in
addition to the data, want to show information about one or more filters
(gates). Since there can be a very large number of cells in a sample, it is
common to show a smoothed version of the data that doesn't involve
registering every point on the graph.
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(flowViz)
Loading required package: flowCore
Loading required package: lattice
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/flowViz/flowPlot.Rd_%03d_medium.png", width=480, height=480)
> ### Name: flowPlot
> ### Title: Standard Plots for Flow Cytometry Data
> ### Aliases: flowPlot flowPlot,flowFrame-method
> ### Keywords: methods
>
> ### ** Examples
>
> data(GvHD)
> flowPlot(GvHD[["s5a01"]])
> flowPlot(transform("SSC-H"=asinh,"FSC-H"=asinh) %on% GvHD[["s5a01"]])
>
>
>
>
>
> dev.off()
null device
1
>