Assay used in FindAllMarkers

[Jayjay601]

Hi,
If the default assay is either integrated or SCT, should assay="RNA" be set in the "FindAllMarkers" function here so that it is not applied to the SCT or integrated assay?

Thank you,
J

[Linpu2023]

Dear @Jayjay601, dear @GenomicsNX,

Have you solved this problem? I want to apply IKAP on SCTransformed data, what modifications should I make?