These methods extend the basic graphics lines methods for
drawing of filter boundaries. They
allow for multiple dispatch, since not all
filter types need to be evaluated for
plotting, but this decision should be made internally.
filter or filterResult or any derived filter class
data
flowFrame or filterResult or character or missing or ANY
verbose
logical
...
other arguments
x = "filter", data = "missing"
General method for all objects
inheriting from filter. This is used as
the default when no more explicit method is found. It tries to find the
plotted parameters from the internal flowViz.state environment. This
only works if the flow data has been plotted using the plot or
xyplot methods provided by this flowViz package.
x = "filterResult", data = "ANY"
General method for all
filterResult object. This
basically extracts the filter from the
filterResult and dispatches on
that.
x = "filterResult", data = "flowFrame"
For some
filter types we need the raw data to
re-evaluate the filter.
x = "curv1Filter", data = "ANY"
We either need a
filterResult or the raw data as a
flowFrame for
curv1Filter.
x = "curv1Filter", data = "flowFrame"
see above
x = "curv1Filter", data = "missing"
see above
x = "curv1Filter", data = "multipleFilterResult"
see above
x = "curv2Filter", data = "ANY"
We either need a
filterResult or the raw data as a
flowFrame for
curv2Filter.
x = "curv2Filter", data = "flowFrame"
see above
x = "curv2Filter", data = "multipleFilterResult"
see above
x = "kmeansFilter", data = "ANY"
We don't know how to plot outlines
of a kmeansFilter, hence we warn.
x = "norm2Filter", data = "ANY"
We either need a
filterResult or the raw data as a
flowFrame for
norm2Filter.
x = "norm2Filter", data = "flowFrame"
see above
x = "norm2Filter", data = "logicalFilterResult"
see above
x = "polygonGate", data = "character"
We can plot a
polygonGate directly from the gate definition.
x = "polygonGate", data = "filterResult"
see above
x = "polygonGate", data = "flowFrame"
see above
x = "quadGate", data = "character"
We can plot a
quadGate directly from the gate definition.
x = "quadGate", data = "filterResult"
see above
x = "quadGate", data = "flowFrame"
see above
x = "rectangleGate", data = "character"
We can plot a
rectangleGate directly from the gate definition.
x = "rectangleGate", data = "filterResult"
see above
x = "rectangleGate", data = "flowFrame"
see above
x = "ellipsoidGate", data = "character"
We can plot a
rectangleGate directly from the gate definition.
x = "ellipsoidGate", data = "filterResult"
see above
x = "ellipsoidGate", data = "flowFrame"
see above
Details
When plotting flowFrames using the
plot or xyplot methods provided by flowViz, the plotted
parameters are recorded, which makes it possible to correctly overlay the
outlines of filter assuming that they
are defined for the respective parameters. Warnings and error will be cast
for the cases where the parameters are non-distinct or ambigious.
The flow parameters plotted can be passed on to any of the methods through
the optional channels argument, which always gets precedence over
automatically detected parameters.
The methods support all plotting parameters that are available for the
baselines functions.