I am a student who's taking a course in computational genomics and I wanted to try this tutorial in Seurat for which I have to create a Seurat object. According to the documentation for creating the Seurat object, along with the count matrix, a barcode file containing the spot barcode and x and y coordinates is required. I am referring to this dataset, in which the raw count matrix is provided but I'm not able to find a barcode file for the given raw count matrix.
Am I missing something obvious or is the barcode file not there for this dataset ? If it isn't there, is there a way to derive the barcode file from the dataset ?
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written
by
Mahesh Rao •
1 answer
Seurat only supports Visium, not the older ST assay. I have a wrapper in https://github.com/lima1/sttkit that generates a Seurat object compatible with all their Spatial* functions.
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