DownLoadCytoData: Download fcs files and select the population of interest in...

In gautierstoll/CytoSOM: Easy use of FlowSOM

Description

DownLoadCytoData is a tool to download data contained in fcs files and select the ones that have been gated as the population of interest in FlowJo. Folder where FCS files are localised and FlowJo workspace should be in current environment.

Usage

DownLoadCytoData(
  dirFCS = "",
  gatingName,
  fcsPattern = "Tube",
  compensate = FALSE
)

Arguments

dirFCS	sub-directory of working directory, where fcs files are located
gatingName	name of the population of interest selected through a FlowJo gating
fcsPattern	name of a pattern common to the fcs files (optional but useful to select only a selection of FCS files contained in a same folder)
compensate	TRUE if data needs to be compensated

Value

FlowSOM data object that includes the data contained in the FlowJo gating and the name of the population of interest.

Examples

CytoData=DownLoadCytoData(dirFCS="Experiment1", gatingName="CD3+", fcsPattern="exp1", Compensate=FALSE)

gautierstoll/CytoSOM documentation built on May 16, 2020, 10:36 a.m.