MetaClustering {FlowSOM} | R Documentation |
Cluster data with automatic number of cluster determination for several algorithms
MetaClustering(data, method, max = 20, seed = NULL, ...)
data |
Matrix containing the data to cluster |
method |
Clustering method to use |
max |
Maximum number of clusters to try out |
seed |
Seed to pass on to given clustering method |
... |
Extra parameters to pass along |
Numeric array indicating cluster for each datapoint
# Read from file, build self-organizing map and minimal spanning tree fileName <- system.file("extdata", "68983.fcs", package = "FlowSOM") flowSOM.res <- ReadInput(fileName, compensate = TRUE,transform = TRUE, scale = TRUE) flowSOM.res <- BuildSOM(flowSOM.res,colsToUse = c(9, 12, 14:18)) flowSOM.res <- BuildMST(flowSOM.res) # Apply metaclustering metacl <- MetaClustering(flowSOM.res$map$codes, "metaClustering_consensus", max = 10) # Get metaclustering per cell flowSOM.clustering <- metacl[flowSOM.res$map$mapping[, 1]]