GetMFIs: Get MFI values for all clusters

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

Description

Get MFI values for all clusters

Usage

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

Arguments

fsom	FlowSOM object as generated by the FlowSOM function or the BuildSOM 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

Matrix with median values for each marker

Examples

fileName <- system.file("extdata", "68983.fcs", package="FlowSOM")
flowSOM.res <- FlowSOM(fileName, compensate=TRUE,transform=TRUE,
                      scale=TRUE,colsToUse=c(9,12,14:18),nClus=10)
mfis <- GetMFIs(flowSOM.res)
mfis <- GetMFIs(flowSOM.res$FlowSOM)

FlowSOM documentation built on Nov. 8, 2020, 6:40 p.m.