Understanding Flow cytometry data
1
0
Entering edit mode
magomudw • 0
@magomudw-9280
Last seen 8.4 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 • 1.5k views
ADD COMMENT
1
Entering edit mode
Jiang, Mike ★ 1.3k
@jiang-mike-4886
Last seen 2.6 years 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

 

ADD COMMENT

Login before adding your answer.

Traffic: 1026 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6