FCStSNE {oneSENSE} | R Documentation |
tSNE and OneSENSE algorithm for FCS data
FCStSNE(LoaderPATH = "fcs", ceil = 5000, FNnames = "names.csv", OutputSuffix = "Out", DotSNE = TRUE, DoOneSENSE = TRUE, Bins = 250)
LoaderPATH |
Path where FCS file is located |
ceil |
Maximum number of cells to sample from each fcs sample/file |
FNnames |
.csv file generated when markers from each category are selected |
OutputSuffix |
suffix to name output folder |
DotSNE |
boolean, if TRUE do tSNE, if FALSE skip tSNE |
DoOneSENSE |
boolean, if TRUE do OneSENSE, if FALSE skip OneSENSE |
Bins |
number of bins to put the cell data into, DEFAULT = 250 |
FCS files, tSNE histograms, OneSENSE plot
#dir <- system.file('extdata/fcs', package='oneSENSE') #FCStSNE(LoaderPATH=dir, FNnames=fnnames) #remove hash symbol to run