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gitdemont / IFC

Tools for Imaging Flow Cytometry
GNU General Public License v3.0
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Support for BD's FACSDiscover S8? #6

Open alefrol638 opened 4 months ago

alefrol638 commented 4 months ago

Hi gitdemont,

are you planning to add support for the flow imaging files generated by the machine FACSDiscover S8? The imaging files are saved in a .cvw file, but images can be exported as .TIFF.

Thanks!

gitdemont commented 4 months ago

Hi @alefrol638 ,

Sorry for the late reply. It could be indeed super cool to have an R package that can handle the whole imaging flow cytometry.

Despite efforts (see https://github.com/svi-opensource/libics) to my knowledge there is no adopted standard. So, it is hard to support all devices (Certainly missing many ... FACSDiscover S8, CytPix ... more generaly, we can also think of segmented images as imaging cytometry) In addition, I don't have hands on FACSDiscover S8 to easily test things.

However, recent commits in IFC package should allow you to read FCS3.2 files If it's about reading TIFF files, there are several R packages you can use tiff, ijtiff, RBioFormats

Could you describe a use-case of what's in IFC package you would like to be applied on FACSDiscover S8 that you can't already ?