cytoBoxplots {cytofast} | R Documentation

## Draw boxplots for cfList

### Description

Draw boxplots for all given clusters. Values are based on the `counts` slot in the `cfList`.

### Usage

    cytoBoxplots(cfList, group, stat)

### Arguments

`cfList` | a cfList object. It should contain at least data in the 'counts' slot.
`group` | one of: a character referring to a column name in the `samples` slot of the `cfList`. a factor indicating the grouping (x-axis) for the boxplots.
`stat` | ignore, will be implemented soon.

### Value

None

### Examples

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

    # Add cell counts to cfList and add meta data
    cfData <- cellCounts(cfData, frequency = TRUE, scale = TRUE)
    meta <- spitzer[match(row.names(cfData@samples), spitzer$CSPLR_ST),]
    cfData@samples <- cbind(cfData@samples, meta)

    # Remove unnecessary markers
    cfData@expr <- cfData@expr[,-c(3:10, 13:16, 55:59, 61:63)]

    # Draw boxplots
    cytoBoxplots(cfData, group="group")

[Package cytofast version 1.4.0 Index]