convert cds to seurat object

Hello.

I want to make pseudo-bulk data from single cell data. I made cds from my single cell raw data. Now, I want to convert this cds format to seurat object. Is it possible?

Thank you for your help!

r monocle3 seurat

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updated 2.4 years ago by edoardofilippi1998 •

• written 2.4 years ago by sooni •

1 answer

Did you try with "as.Seurat"? https://github.com/satijalab/seurat-wrappers/blob/master/docs/monocle3.md

integrated.sub <- as.Seurat(cds)

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updated 2.4 years ago by GenoMax

• written 2.4 years ago by edoardofilippi1998 •

Yes, I tried with as.Seurat. But there is an error follwing: Error: No data in provided assay - logcounts. How can I solve this problem?

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written 2.4 years ago by sooni •

Did you check the data in the assay of the cell_data_set object?

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written 2.4 years ago by edoardofilippi1998 •

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