gatingset_to_flowjo: Convert a GatingSet to flowJo workspace

In CytoML: A GatingML Interface for Cross Platform Cytometry Data Sharing

Description

It is a R wrapper for the docker app (https://hub.docker.com/r/rglab/gs-to-flowjo)

Usage

gatingset_to_flowjo(gs, outFile, showHidden = FALSE, docker_img = NULL, ...)

Arguments

gs	a GatingSet object or a folder contains the GatingSet archive (generated by previous save_gs call)
outFile	the workspace file path to write
showHidden	whether to export hidden gates. Default is FALSE
docker_img	the docker image that does the actual work
...	other arguments passed to save_gs

Details

Docker images for gatingset_to_flowjo will be maintained at https://gallery.ecr.aws/x4k5d9i7/cytoverse/gs-to-wsp

docker pull public.ecr.aws/x4k5d9i7/cytoverse/gs-to-wsp:latest

Value

nothing

Examples

## Not run: 
library(flowWorkspace)

path <- system.file("extdata",package="flowWorkspaceData")
gs_path <- list.files(path, pattern = "gs_manual",full = TRUE)
gs <- load_gs(gs_path)

#output to flowJo
outFile <- tempfile(fileext = ".wsp")
gatingset_to_flowjo(gs, outFile)

#or directly use the archive as the input (to avoid the extra copying inside of the wrapper)
gatingset_to_flowjo(gs_path, outFile)

## End(Not run)

CytoML documentation built on March 12, 2021, 2 a.m.