Raw or Normalized matrix when using addGeneExpressionMatrix with a matrix from Seurat/Scanpy? #2182
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AmosFong1
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https://www.archrproject.com/reference/addGeneExpressionMatrix.html The answer is raw data (integer counts). Can I use SoupX corrected pseudo-counts for this purpose? |
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If I am deriving a gene expression matrix from a prior Seurat/Scanpy object, should I be using the raw data or normalized data in addGeneExpressionMatrix?
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