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Question regarding n_genes_by_counts #124

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KyrosWang opened this issue Sep 12, 2024 · 0 comments
Open

Question regarding n_genes_by_counts #124

KyrosWang opened this issue Sep 12, 2024 · 0 comments

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@KyrosWang
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KyrosWang commented Sep 12, 2024 •
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Hi Tangram team,

Thank you for this amazing tool! I am having a problem using projected data for downstream analysis. I found the projected new spatial data had the uniform value of n_genes_by_counts calculated by scanpy. This means the projected data has non-zero values for any gene at any spot, which complicates the downstream analysis. Is there a fix for that or how would you analyze the projected data (clustering, DEGs, etc.)?
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@KyrosWang