Understanding Flow cytometry data
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magomudw • 0
@magomudw-9280
Last seen 5.9 years ago

Have been analysing my flow data using flowJo but then l would want to use R and its packages. Could l have someone who could flow analysis using flow workspace and other related packages...., Greg or anyone? we can chat more using my email...., magomudw@gmail.com

flow cytometry flowcore flowclean rflowcyt flowworkspace • 963 views
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Jiang, Mike ★ 1.3k
@jiang-mike-4886
Last seen 23 days ago
(Private Address)

You should probably start with the package vignettes to learn what they can do for you:

Use flowCore to interact with the basic raw flow data and gates:

https://www.bioconductor.org/packages/release/bioc/vignettes/flowCore/inst/doc/HowTo-flowCore.pdf

Use flowWorkspace to  import the flowJo workspace and interact with gating hierarchy 

https://www.bioconductor.org/packages/release/bioc/vignettes/flowWorkspace/inst/doc/flowWorkspace.pdf

and visualize the gated data

https://www.bioconductor.org/packages/release/bioc/vignettes/flowWorkspace/inst/doc/plotGate.html

Use ggcyto for ggplot-type of plot 

https://github.com/RGLab/ggcyto

Use openCyto to build the gating tree with automated gating algorithms

https://www.bioconductor.org/packages/release/bioc/vignettes/openCyto/inst/doc/openCytoVignette.html

https://www.bioconductor.org/packages/release/bioc/vignettes/openCyto/inst/doc/HowToWriteCSVTemplate.html

 

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