cellCounts {cytofast} | R Documentation

## Extract cell counts from cfList

### Description

A function to add the frequency (or abundance) of cell clusters per sample to a `cfList`.

### Usage

    cellCounts(cfList, frequency = FALSE, scale = FALSE)

### Arguments

`cfList` | a cfList object. It should contain at least data in the 'expr' slot.
`frequency` | one of a logical value. if `FALSE`, the abundance of the cell counts are used. If `TRUE`, the frequency of the total amount of given cells is used. a numeric vector of same length as amount of samples
`scale` | a logical value. Do the cell frequencies need to be centered and scaled? The default `scale` function is called.

### Value

Returns a cfList with a 'counts' slot.

### Examples

    # Read Data
    dirFCS <- system.file("extdata", package="cytofast")
    cfData <- readCytosploreFCS(dir = dirFCS, colNames = "description")

    # Add cell counts to cfList
    cfData <- cellCounts(cfData)

[Package cytofast version 1.6.0 Index]