Split conditions and annotate

[feanaros]

Hello team I would like to split my dataset by condition and annotate the cell types using SingleR. Is there a way to visualize or compare the differences in cell type annotations between the two conditions?

[j-andrews7]

There is no need to split anything given each cell is annotated individually. See the OSCA book for methods of differential abundance/proportion testing of cell types.

On Sun, Oct 6, 2024, 2:30 AM olga @.***> wrote:

Hello team I would like to split my dataset by condition and annotate the cell types using SingleR. Is there a way to visualize or compare the differences in cell type annotations between the two conditions?

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[feanaros]

Hi, thank you. I know the differential proportion tests. Anyway, there is a way to visualize/quantify the proportion of cells assigned to the various types in the same dataset? Or should I refer just to the scores?

[j-andrews7]

Tons of ways. Take a look at dittoSeq for a few options for proportion plots.

On Wed, Oct 9, 2024, 8:17 AM olga @.***> wrote:

Hi, thank you. I know the differential proportion tests. Anyway, there is a way to visualize/quantify the proportion of cells assigned to the various types in the same dataset? Or should I refer just to the scores?

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