qaProcess.DensityPlot {flowQ} | R Documentation |
This function takes a list of flowSet
as input and
creates all necessary outputs for a 'DensityPlot' type QA
process. Objects created by this function can be laid out as HTML
using writeQAReport
.
qaProcess.DensityPlot(flowList,dyes=NULL,outdir="QAReport", alpha=0.05,det.dimensions=c(400,400), pdf=FALSE,...)
flowList |
A list of flowSet |
dyes |
Flow parameters to be compared across multiple samples.
If set to NULL, all parameters that are duplicated across the list of
flowSet are identified and compared. |
outdir |
The directory to which the graphical output is to be saved. If multiple QA processes are to be combined, make sure to use the same directory every time. |
alpha |
Outlier mislabeling rate |
det.dimensions |
the dimensions of each image generated by the QA process. |
pdf |
boolen value determinining if pdf files or jpeg images will be produced by the QA process |
... |
Further arguments. |
QA processes of type 'DensityPlot' detects differences in the density plots across multiple samples. A summary measure based on the sum of the pairwise KL Distances of density plots is used as a parameter to flag patient panels that are potential outliers.
For more details on how to layout qaProcess
objects to
HTML, see writeQAReport
and qaReport
.
An object of class qaProcess
.
Nishant Gopalakrishnan
writeQAReport
, qaReport
,
qaProcess
, qaProcess.marginevents
,
qaProcess.ECDFPlot
, qaProcess.2DStatsPlot
data(qData) dest <- tempdir() resDensityFSC <- qaProcess.DensityPlot(qData,dyes=c("FSC-A","SSC-A"),outdir=dest,alpha=0.2,pdf=TRUE)