FlowSOMSubset {FlowSOM} | R Documentation |
Take a subset from a FlowSOM object
FlowSOMSubset(fsom, ids)
fsom |
FlowSOM object, as generated by |
ids |
Array containing the ids to keep |
FlowSOM object containg updated data and medianvalues, but with the same grid
# Read two files (Artificially, as we just split 1 file in 2 subsets) fileName <- system.file("extdata", "68983.fcs", package="FlowSOM") ff1 <- flowCore::read.FCS(fileName)[1:1000,] ff1@description$FIL <- "File1" ff2 <- flowCore::read.FCS(fileName)[1001:2000,] ff2@description$FIL <- "File2" flowSOM.res <- FlowSOM(flowCore::flowSet(c(ff1,ff2)), compensate=TRUE, transform=TRUE, scale=TRUE, colsToUse=c(9,12,14:18), maxMeta=10) fSOM <- flowSOM.res[[1]] # see $metadata for subsets: fSOM$metaData # Use only the second file, without changing the map fSOM2 <- FlowSOMSubset(fSOM, (fSOM$metaData[[2]][1]):(fSOM$metaData[[2]][2]))