qaProcess.marginevents {flowQ} | R Documentation |
This function takes a 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, grouping=NULL, outdir, cFactor = 1, ...)
set |
A flowSet |
channels |
A character vector of channel names for which margin events are to be recorded |
grouping |
A character vector defining one of the variables in
the phenoData of set used as a grouping variable. If this
argument is uses, comparisons will be made within groups rather than
across all samples. |
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. |
cFactor |
The threshold at which the QA process is considered to have failed. This is the fold change of margin event percentages compared to the median percentage of events for the respective channel. |
... |
Further arguments. |
QA processes of type 'marginevents' record the number of events that fall on the margins of the measurement range for each channel. Unproportionally high numbers of such events can indicate problems with the instrument settings.
For more details on how to layout qaProcess
objects to
HTML, see writeQAReport
and qaReport
.
An object of class qaProcess
.
This function is still experimental
Florian Hahne
writeQAReport
, qaReport
,
qaProcess
, qaProcess.timeline
,
qaProcess.timeflow
, qaProcess.cellnumber
## Not run: data(GvHD) dest <- tempdir() qp <- qaProcess.marginevents(GvHD, channels=c("FL1-H", "FL2-H"), outdir=dest) qp ## End(Not run)