GetClusterMFIs: Get MFI values for all clusters

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

Get MFI values for all clusters

Description

Get MFI values for all clusters

Usage

GetClusterMFIs(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 <- GetClusterMFIs(flowSOM.res)

SofieVG/FlowSOM documentation built on Feb. 1, 2024, 11:33 a.m.