qaProcess.timeline {flowQ} | R Documentation |
This function takes a flowSet
as input and
creates all necessary output for a 'timeline' type QA process. Objects
created by this function can be laid out as HTML using
writeQAReport
.
qaProcess.timeline(set, channels=NULL, outdir, cutoff=1, name="time line", sum.dimensions=NULL, det.dimensions=c(7,7), pdf=TRUE, ...)
set |
A flowSet |
channels |
A character vector of channel names for which the
qaReport is to be produced. Will use all available channels except
for the time channel if NULL . |
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 for all of them. |
cutoff |
The threshold at which the QA criterion is considered
to be failed. An absolute value in the timeline deviation score as
computed by the timeLinePlot function. |
name |
The name of the process used for the headings in the HTML output. |
sum.dimensions, det.dimensions |
The dimensions of the pdf device in inches used for the summary and the detailed plots. |
pdf |
Logical indicating whether to create vectorized versions of
images for this quality process. This should be set to FALSE
if disk space is critical, since the pdf versions of the image
consume much more space on the hard drive compared to the bitmap
version. |
... |
Further arguments. |
QA processes of type 'timeline' detect unusal patterns in the acquisition of fluorescense and light scatter measurements over time. These are detected dynamically by identifying trends in the signal intensity over time or local changes in the measurement intensities. The underlying hypothesis is that measurement values are acquired randomly, hence there shouldn't be any correlation to time.
For more details on how to layout qaProcess
objects to
HTML, see writeQAReport
and qaReport
.
An object of class qaProcess
.
Florian Hahne
writeQAReport
, qaReport
,
qaProcess
, qaProcess.marginevents
,
qaProcess.timeflow
, qaProcess.cellnumber
## Not run: data(GvHD) GvHD <- transform(GvHD, "FL1-H"=asinh(`FL1-H`), "FL2-H"=asinh(`FL2-H`)) dest <- tempdir() qp <- qaProcess.timeline(GvHD, channel="FL1-H", outdir=dest, cutoff=1) qp ## End(Not run)