FCStSNE: tSNE and OneSENSE algorithm for FCS data

Description Usage Arguments Value Examples

View source: R/FCStSNE.R

Description

tSNE and OneSENSE algorithm for FCS data

Usage

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FCStSNE(LoaderPATH = "fcs", ceil = 5000, FNnames = "names.csv",
  OutputSuffix = "Out", DotSNE = TRUE, DoOneSENSE = TRUE, Bins = 250)

Arguments

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

Value

FCS files, tSNE histograms, OneSENSE plot

Examples

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#dir <- system.file('extdata/fcs', package='oneSENSE')
#FCStSNE(LoaderPATH=dir, FNnames=fnnames) #remove hash symbol to run

JinmiaoChenLab/oneSENSE documentation built on May 3, 2019, 4:59 p.m.