gpoints-methods: Adding points within a gate to a plot
Description
These methods extend the basic graphics
points methods for drawing of points contained within a
filter. They allow for multiple
dispatch, since not all filter types
need to be evaluated for plotting, but this decision should be made
internally. In any case, we need the raw data in the form of a
flowFrame.Methods
- x = "filter", data = "flowFrame", channels = "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 methods provided by this flowViz
package. - x = "filter", data = "missing", channels = "ANY"
- This gives
a useful error message when we don't get what we need.
- x = "filterResult", data = "flowFrame", channels =
"character"
- We can get all the information about a
filter from its
filterResult without the need to
re-evaluate. - x = "curv1Filter", data = "ANY"
- We either need a
filterResult or the raw data as a
flowFrame for
curv1Filters. - 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
curv2Filters. - x = "curv1Filter", data = "flowFrame", channels =
"character"
- We evaluate the
filter on the
flowFrame and plot the subset of
selected points. By default, every subpopulation (if there are
any) is colored differently. - x = "curv2Filter", data = "flowFrame", channels = "character"
-
see above
- x = "kmeansFilter", data = "flowFrame", channels =
"character"
- see above
- x = "norm2Filter", data = "flowFrame", channels =
"character"
- see above
- x = "polygonGate", data = "flowFrame", channels =
"character"
- see above
- x = "quadGate", data = "flowFrame", channels = "character"
-
see above
- x = "rectangleGate", data = "flowFrame", channels =
"character"
- see above
Details
When plotting flowFrames
using the plot method provided by flowViz, the plotted
parameters are recorded, which makes it possible to correctly overlay the
points within filters 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.