qaProcess.cellnumber {flowQ} | R Documentation |
This function takes a flowSet
as input and
creates all necessary output for a 'cellnumber' type QA process. Objects
created by this function can be laid out as HTML using
writeQAReport
.
qaProcess.cellnumber(set, grouping=NULL, outdir, cFactor=0.5, name="cell number", sum.dimensions=c(7,7), ...)
set |
A flowSet |
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 be failed. The factor of standard deviations away from the average number of cells per sample |
name |
The name of the process used for the headings in the HTML output |
sum.dimensions |
The pdf dimensions used for the summary. |
... |
Further arguments. |
QA processes of type 'cellnumber' detect aberations in the number of cells analyzed per frame.
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.timeline
## Not run: data(GvHD) dest <- tempdir() qp <- qaProcess.cellnumber(GvHD, outdir=dest, cFactor=1) qp ## End(Not run)