flowSet
as
input and
creates all necessary output for a 'marginevents' type QA
process. Objects created by this function can be laid out as HTML
using writeQAReport
.
qaProcess.marginevents(set, channels=NULL,side ="both", grouping=NULL, outdir, cFactor=2, absolute.value=NULL, name="margin events", sum.dimensions=NULL, det.dimensions=c(3,1), pdf=TRUE, ...)
flowSet
.NULL
. "character"
. The margin
on which to evaluate the filter. Either upper
for the
upper margin or lower
for the lower margin or both
for both margins. set
used as a grouping variable. If this
argument is used and if absolute.value
is NULL
, outlier
detection will be performed within groups rather than across all
samples.NULL
, cFactor
is ignored.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. Setting the argument to FALSE
will also
speed up the process.qaProcess
.
absolute.value
is not NULL
, by an absolute cutoff
value. If there is a natural grouping among the samples, this can be
specified using the grouping
argument. In this case, the
outlier detection will be performed within its respective group for a
particular sample.
For more details on how to layout
qaProcess
objects to
HTML, see writeQAReport
and
qaReport
.
writeQAReport
,
qaReport
,
qaProcess
,
qaProcess.timeline
,
qaProcess.timeflow
,
qaProcess.cellnumber
## Not run:
# data(GvHD)
# dest <- tempdir()
# qp <- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"),
# outdir=dest)
# qp
# ## End(Not run)
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