LTLA
Split conditions and annotate
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?
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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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?
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?
— Reply to this email directly, view it on GitHub https://github.com/SingleR-inc/SingleR/issues/278#issuecomment-2402325599, or unsubscribe https://github.com/notifications/unsubscribe-auth/ACOAQNDAMT6WU32ZZKP3PDDZ2UUGJAVCNFSM6AAAAABPOCKZ2KVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDIMBSGMZDKNJZHE . You are receiving this because you commented.Message ID: @.***>