GetPercentages {FlowSOM} | R Documentation |
Get percentages of number of cells in clusters or metaclusters
GetPercentages(fsom, level = "metaclusters")
fsom |
FlowSOM object |
level |
Character string, should be either "clusters" or "metaclusters" (default) |
A named vector with the percentages
# Read from file, build self-organizing map and minimal spanning tree 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::estimateLogicle(ff, flowCore::colnames(ff)[8:18])) flowSOM.res <- FlowSOM(ff, scale = TRUE, colsToUse = c(9, 12, 14:18), nClus = 10, seed = 1) GetPercentages(flowSOM.res) GetPercentages(flowSOM.res, level = "clusters")