How to Import the channel value

[MoHonardoost]

Dear Jhuang
Thanks for the great package that you have developed for the flow cytometry analysis. I noticed that once we import the fcs files and make a flowspy object, the scaled values are imported into the object. However, I wanted to have the channel values in the matrix. I was wondering if there is any way to change it to channel values or if we can start with the exported csv files (of channel values) instead of fcs files and make a flowspy object?

Thanks
Regards.

[ytdai]

Dear Jhuang
Thanks for the great package that you have developed for the flow cytometry analysis. I noticed that once we import the fcs files and make a flowspy object, the scaled values are imported into the object. However, I wanted to have the channel values in the matrix. I was wondering if there is any way to change it to channel values or if we can start with the exported csv files (of channel values) instead of fcs files and make a flowspy object?

Thanks
Regards.

Dear MoHonardoost, @MoHonardoost

I think you can set transformMethod = "none" when running flowSpy::runExprsMerge or flowSpy::runExprsExtract.

The basic tutorial can be found via https://ytdai.github.io/flowSpy/basic.html

Best,
Yuting Dai