markernames: get or update the marker names

In flowCore: flowCore: Basic structures for flow cytometry data

Description

marker names corresponds to the 'desc' column of the phenoData of the flowFrame.

Usage

markernames(object, ...)

## S4 method for signature 'flowFrame'
markernames(object)

markernames(object) <- value

## S4 replacement method for signature 'flowFrame'
markernames(object) <- value

## S4 method for signature 'flowSet'
markernames(object)

## S4 replacement method for signature 'flowSet'
markernames(object) <- value

Arguments

object	flowFrame or flowSet
...	not used
value	a named list or character vector. the names corresponds to the name(channel) and actual values are the desc(marker).

Details

When extract marker names from a flowSet, it throws the warning if the marker names are not all the same across samples.

Value

marker names as a character vector. The marker names for FSC,SSC and Time channels are automatically excluded in the returned value. When object is a flowSet and the marker names are not consistent across flowFrames, it returns a list of unique marker sets.

Examples

data(GvHD)
fr <- GvHD[[1]]
markernames(fr)

chnls <- c("FL1-H", "FL3-H")
markers <- c("CD15", "CD14")
names(markers) <- chnls
markernames(fr) <- markers
markernames(fr)

fs <- GvHD[1:3]
markernames(fs)

flowCore documentation built on Nov. 8, 2020, 5:19 p.m.