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Seurat DimPlot generates a weird data frame together with the scatter plot

Hi all, for some reason that I can not figure out, this code:

 # View UMAP with macrophages and patient clusters
macrophage_cells_patient_id_plot <- DimPlot(
  breast_cancer_patients_macrophage_cells,
  reduction = "umap",
  group.by = "Patient.ID",
)
macrophage_cells_patient_id_plot

which makes use of the Seurat function DimPlot, generates not only the scatter plot but also a data.frame:

Unusual data frame generated by Seurat DimPlot

I have used the DimPlot function in many other R scripts/Quarto documents and this never happened. Has anyone experienced this? Why is this happening? Is it connected to the reductions in the Seurat object? How can I get rid of the data frame?

r seurat
• 1,033 views • link
written by solo.albif • solo.albif

Yes, if I run DimPlot() without assigning to an object it works fine.

Thank you for the link to the RStudio issue! It did not come up during my searches.

• 0 views • link
written by solo.albif • solo.albif

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