SaveClustersToFCS {FlowSOM} | R Documentation |
Write FlowSOM clustering results to the original FCS files
SaveClustersToFCS( fsom, originalFiles, preprocessedFiles = NULL, selectionColumn = NULL, silent = FALSE, outputDir = ".", suffix = "_FlowSOM.fcs" )
fsom |
FlowSOM object as generated by BuildSOM |
originalFiles |
FCS files that should be extended |
preprocessedFiles |
FCS files that correspond to the input of FlowSOM, If NULL (default), the originalFiles are used. |
selectionColumn |
Column of the FCS file indicating the original cell ids. If NULL (default), no selection is made. |
silent |
If FALSE (default), print some extra output |
outputDir |
Directory to save the fcs files. Default to the current working directory (".") |
suffix |
Suffix added to the filename. Default _FlowSOM.fcs |
Saves the extended fcs file as [originalName]_FlowSOM.fcs
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) SaveClustersToFCS(flowSOM.res, fileName)