cyto_export: Export cytometry data for use in flowJo or Cytobank

Description Usage Arguments Author(s) Examples

View source: R/cyto-helpers.R

Description

Simply a wrapper around CytoML gatingset_to_cytobank and gatingset_to _flowjo to export your CytoExploreR analyses in a format accepted by these platforms. Users will need to have docker running on their computers to export flowJo workspace files.

Usage

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cyto_export(x, save_as = NULL, ...)

Arguments

x

object of class GatingSet to export.

save_as

the name of a flowJo workspace file with .wsp extension or a Cytobank xml file with .xml extension.

...

additional arguments passed to gatingset_to_cytobank or gatingset_to_flowjo.

Author(s)

Dillon Hammill, Dillon.Hammill@anu.edu.au

Examples

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## Not run: 
library(CytoExploreRData)
library(CytoML)

# Activation GatingSet
gs <- GatingSet(Activation)

# Compensation
gs <- cyto_compensate(gs)

# Transformations
gs <- cyto_transform(gs)

# Gating
gs <- cyto_gatingTemplate_apply(gs, Activation_gatingTemplate)

# Export to cytobank xml
cyto_export(gs, "cytobank.xml")

# Export to flowjo workspace
cyto_export(gs, "flowjo.wsp")

## End(Not run)

DillonHammill/CytoExploreR documentation built on July 9, 2020, 1:53 a.m.