parse_flowjo: Parse a FlowJo workspace for one specific file

In saeyslab/FlowSOM_workshop: How to get started with FlowSOM

Description

Extract the compensated and transformed data and all gate labels.

Usage

parse_flowjo(files, wsp_file, group = "All Samples", plot = FALSE)

Arguments

wsp_file	Path to the FlowJo workspace
group	Group the file belongs to in the FlowJo workspace. Default is "All Samples"
file	Path to the fcs file of interest

Value

Returns a list with two elements: flowFrame and gates. flowFrame contains the compensated and transformed fcs file, as set up in the FlowJo workspace. gates is a matrix in which each row corresponds with an individual cell and each column with an individual gate, containing TRUE/FALSE values indicating whether the cell falls into that gate

saeyslab/FlowSOM_workshop documentation built on Sept. 3, 2021, 9:21 a.m.