GetChannels: GetChannels

In SofieVG/FlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data

GetChannels

Description

Get channel names for an array of markers, given a flowFrame or a FlowSOM object. As available in "name". grep is used to look for the markers. Other regex can be added.

Usage

GetChannels(object, markers, exact = TRUE)

Arguments

object	The flowFrame or the FlowSOM object of interest
markers	Vector with markers or channels of interest. Also accepts the index of the marker found in the object.
exact	If TRUE (default), the grep pattern will be extended to start with ^\\Q and end with \\E$, so only exact matches are possible.

Value

Corresponding channel names

See Also

GetMarkers

Examples

   # Read the flowFrame
   fileName <- system.file("extdata", "68983.fcs", package = "FlowSOM")
   ff <- flowCore::read.FCS(fileName)
   GetChannels(ff, c("FSC-A", "CD3", "FITC-A"))
   GetMarkers(ff, c("FSC-A", "CD3", "FITC-A"))

SofieVG/FlowSOM documentation built on Feb. 1, 2024, 11:33 a.m.