Good Dotplots for homogenous data (Seurat)
Hi,
I am trying to generate publication quality dotplots by using seurat but my data is so homogenous and only contain one cell type. Which plots should ı use for this purpose ? Would you share your codes for good dotplots?
seurat
dotplot
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yura.grabovska •
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carolofharvest •
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Can you share an example of what you want to make and also try and explain a bit more about what your data is and what the specific issue is with it?