GetMetaclusterMFIs {FlowSOM} | R Documentation

## GetMetaclusterMFIs

### Description

Compute the median fluorescence intensities for the metaclusters

### Usage

    GetMetaclusterMFIs(fsom, colsUsed = FALSE, prettyColnames = FALSE)

### Arguments

`fsom` | Result of calling the FlowSOM function
`colsUsed` | Logical. Should report only the columns used to build the SOM. Default = FALSE.
`prettyColnames` | Logical. Should report pretty column names instead of standard column names. Default = FALSE.

### Value

Metacluster MFIs

### Examples

    fileName <- system.file("extdata", "68983.fcs", package = "FlowSOM")
    ff <- flowCore::read.FCS(fileName)
    ff <- flowCore::compensate(ff, flowCore::keyword(ff)[["SPILL"]])
    ff <- flowCore::transform(ff,
             flowCore::transformList(colnames(flowCore::keyword(ff)[["SPILL"]]),
                                    flowCore::logicleTransform()))
    flowSOM.res <- FlowSOM(ff,
                           scale = TRUE,
                           colsToUse = c(9, 12, 14:18),
                           nClus = 10)
    mfis <- GetMetaclusterMFIs(flowSOM.res)

[Package FlowSOM version 2.2.0 Index]