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Description
Hello,
This package really helped my workflow from the ficture output to answering the biological questions of interest, so thank you for making and sharing it!
I also wanted to let you know that for the MHCI (or MHC I) gene, the spatula output using a CosMx RNA dataset and the Ficture decod_xxx_pixel output has an "I" character in the Count column (instead of an integer) and the gene is mislabeled as MHC instead of MHC I (see screenshot below, where the fourth column corresponds to the "Count" field). I assumed most of the counts were ones, but I can't really know from the table. I wonder if this has to do with some character matching issue? And if it should/could be fixed. I also should note that in the ~1k CosMx gene set that I worked with there were issues only with this gene.
Best,