Question: Understanding Flow cytometry data
0
gravatar for magomudw
4.0 years ago by
magomudw0
magomudw0 wrote:

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

ADD COMMENTlink modified 4.0 years ago by Jiang, Mike1.2k • written 4.0 years ago by magomudw0
Answer: Understanding Flow cytometry data
1
gravatar for Jiang, Mike
4.0 years ago by
Jiang, Mike1.2k
(Private Address)
Jiang, Mike1.2k wrote:

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 COMMENTlink modified 4.0 years ago • written 4.0 years ago by Jiang, Mike1.2k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 226 users visited in the last hour