flowjo_to_gatingset function error
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Iman • 0
@aa677b18
Last seen 9 days ago

Enter the body of text here I am analysing flow cytometry data by R & FlowJo. I am using R packages CytoML & flowWorkspace. I am new to this. However, I am encountering a fatal error while I am trying to parse a FlowJo workspace (xml) by the function “flowjo_to_gatingset”. When I run this function on R, I retrieve no error warnings. Yet, I recently found out that there is a huge difference in gating statistics computed in R & FlowJo. Apparently, R didn’t handle the “Time parameter”-defined gates well. The gates coordinates differ significantly from FlowJo. Consequently, the leaf gate includes only 111 events in R, while it includes more than 5000 events in FlowJo. I wonder have any of you faced similar errors before? Any recommendations on what should I do to resolve this case? Your help will be highly appreciated. Thanks a lot. I wonder have you faced similar errors before? Any recommendations on what should I do to resolve this case? Your help will be highly appreciated. Thanks a lot.

Code should be placed in three backticks as shown below


> gh_get_transformations(gs[[1]], channel = "Time")
function (x) 
{
    x * curTrans$scale_factor
}
<bytecode: 0x0000018638879800>
<environment: 0x000001866e7c9cf8>
attr(,"type")
[1] "scale"
>

sessionInfo()
R version 4.0.3 (2020-10-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)
CytoML • 43 views
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