flowjo_to_gatingset ignore range as defined in FCS files

RGLab / CytoML

A GatingML Interface for Cross Platform Cytometry Data Sharing

GNU Affero General Public License v3.0

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flowjo_to_gatingset ignore range as defined in FCS files #155

Open Close-your-eyes opened 5 months ago

Close-your-eyes commented 5 months ago

Hello.

Is there a way to tell flowjo_to_gatingset that is should ignore the range keyword from FCS files? Similar to the truncate_max_range argument in flowCore::read.FCS?

I found a workaround by modifying the respective keywords in the FCS files. However, this seems to be generic problem / convenient feature.

Thanks.

mikejiang commented 5 months ago

are you referring to $PnR keywords? They are required according to the standard, Why would you want to ignore them?

Close-your-eyes commented 3 months ago

Yes I do mean these keywords. In my case it appears that the machine actually has resolution for higher values in fsc and ssc channels.

mikejiang commented 3 months ago

These keywords are used extensively in cytoverse tools, thus it is important to make sure they are accurate and consistent, which was what you already did