plotQA.FCS {rflowcyt}R Documentation

Create a scatterplot summaryzing one (or two) parameter(s) for several FCS objects stored in a plate

Description

Create a scatterplot summaryzing one (or two) parameter(s) for several FCS objects stored in a plate. The points are colored according to their position in the plate (row or column number.)

Usage

plotQA.FCS(data,varpos=c(1,2),FUN1=IQR,FUN2=NULL,col="row",nrow=8,ncol=12,ind=c(1:96),labeling=TRUE,...)                      

Arguments

data a list of fluorescent data from one (or more) FCS object(s) or a cytoset
varpos the numerical column variable position of the data of the FCS object
FUN1 function to summaryze the distribution of the data, e.g. mean, median, IQR, MODE
FUN2 function to summaryze the distribution of the data e.g. mean, median, IQR, MODE
col
nrow numeric, number of rows per plate
ncol numeric, number of columns per plate
ind numeric vector, index of the wells to be plotted
labeling logical, draw plate position (default=TRUE)
... any other arguments are passed to the plot function

Value

None.

Author(s)

Nolwenn Le Meur

See Also

plot

Examples

  ##Example I:
 data(flowcyt.data)

 ##Draw a scatterplot of the median values
 ##of the Foward scatter and the Side scatter parameters
 ##of each FCS file. The files correspond to samples store in a 96 well plate.
 plotQA.FCS(flowcyt.data,varpos=c(1,2),FUN1=median,nrow=8,ncol=10,ind=c(1:80),col="row",pch="*",labeling=FALSE,xlim=c(0,300),ylim=c(0,300),main="FSCmedian vs.SSCmedian by row",xlab="SSC median",ylab="FSC median")

 ##Example II:
 ##Draw a a scatterplot of the mode and IQR values for the Foward scatter
 ##of each FCS file. 
 plotQA.FCS(flowcyt.data,varpos=c(1),FUN1=IQR,FUN2=MODE,nrow=8,ncol=10,ind=c(1:80),col="col",pch="*",labeling=TRUE,xlim=c(0,300),ylim=c(0,300),xlab="FSC mode",ylab="FSC IQR",main="FSC IQR vs.FSC mode by column")
 

[Package rflowcyt version 1.4.0 Index]