flowCore (version 1.38.2)

gateActionItem-class: Class "gateActionItem"

Description

Class and method to capture gating operations in a flow cytometry workflow.

Usage

gateActionItem(ID = paste("gateActionRef", guid(), sep = "_"), name =
paste("action", identifier(get(gate)), sep = "_"), parentView, gate,
filterResult, workflow)

Arguments

workflow

An object of class workFlow for which a view is to be created.

ID

A unique identifier of the view, most likely created by using the internal guid function.

name

A more human-readable name of the view.

parentView, gate, filterResult

References to the parent view, filter, and filterResult objects, respectively.

Value

A reference to the gateActionItem that is created inside the workFlow environment as a side effect of calling the add method.A gateActionItem object for the constructor.

Objects from the Class

Objects should be created using the add method, which creates a gateActionItem from a filter object and directly assigns it to a workFlow. Alternatively, one can use the gateActionItem constructor function for more programmatic access.

Slots

gate:

Object of class "fcFilterReference". A reference to the filter that is used for the gating operation.

filterResult:

Object of class "fcFilterResultReference". A reference to the filterResult produced by the gating operation.

ID:

Object of class "character". A unique identifier for the actionItem.

name:

Object of class "character". A more human-readable name

parentView:

Object of class "fcViewReference". A reference to the parent view the gateActionItem is applied on.

env:

Object of class "environment". The evaluation environment in the workFlow.

Extends

Class "actionItem", directly.

Methods

gate

signature(object = "gateActionItem"): Accessor to the gate slot. Note that this resolved the reference, i.e., the filter object is returned.

print

signature(x = "gateActionItem"): Print details about the object.

Rm

signature(symbol = "gateActionItem", envir = "workFlow", subSymbol = "character"): Remove a gateActionItem from a workFlow. This method is recursive and will also remove all dependent views and actionItems.

show

signature(object = "gateActionItem"): Print details about the object.

summary

signature(object = "gateActionItem"): Summarize the gating operation and return the appropriate filterSummary object.

Details

gateActionItems provide a means to bind gating operations in a workflow. Each gateActionItem represents a single filter.

See Also

workFlow, actionItem, transformActionItem, compensateActionItem, view

Examples

showClass("view")