rotate_gate: Simplified geometric rotation of gates associated with nodes

In flowWorkspace: Infrastructure for representing and interacting with gated and ungated cytometry data sets.

Description

Rotate a gate associated with a node of a GatingHierarchy or GatingSet. This method is a wrapper for rotate_gate that enables updating of the gate associated with a node of a GatingHierarchy or GatingSet.

rotate_gate calls gs_pop_set_gate to modify the provided GatingHierarchy or GatingSet directly so there is no need to re-assign its output. The arguments will be essentially identical to the flowCore method, except for the specification of the target gate. Rather than being called on an object of type flowCore:filter, here it is called on a GatingHierarchy or GatingSet object with an additional character argument for specifying the node whose gate should be transformed. The rest of the details below are taken from the flowCore documentation.

Usage

## S3 method for class 'GatingHierarchy'
rotate_gate(obj, y, deg = NULL, rot_center = NULL, ...)

Arguments

obj	A GatingHierarchy or GatingSet object
y	A character specifying the node whose gate should be modified
deg	An angle in degrees by which the gate should be rotated in the counter-clockwise direction
rot_center	A separate 2-dimensional center of rotation for the gate, if desired. By default, this will be the center for ellipsoidGate objects or the centroid for polygonGate objects. The rot_center argument is currently only supported for polygonGate objects.
...	not used

Details

This method allows for geometric rotation of filter types defined by simple geometric gates (ellipsoidGate, and polygonGate). The method is not defined for rectangleGate or quadGate objects, due to their definition as having 1-dimensional boundaries.

The angle provided in the deg argument should be in degrees rather than radians. By default, the rotation will be performed around the center of an ellipsoidGate or the centroid of the area encompassed by a polygonGate. The rot_center argument allows for specification of a different center of rotation for polygonGate objects (it is not yet implemented for ellipsoidGate objects) but it is usually simpler to perform a rotation and a translation individually than to manually specify the composition as a rotation around a shifted center.

See Also

transform_gate flowCore::rotate_gate

Examples

## Not run: 
#' # Rotates the original gate 15 degrees counter-clockwise
rotate_gate(gs, node, deg = 15)
# Rotates the original gate 270 degrees counter-clockwise
rotate_gate(gs, node, 270)

## End(Not run)

flowWorkspace documentation built on Nov. 8, 2020, 8:08 p.m.