Error while converting ExpressionSet format to SingleCellExperiment format?

Question

[shuaizh117]

I encountered an error while trying to convert one ExpressionSet to SingleCellExperiment. I used the function of toSingleCellExperiment from Scater, however it gave me the error as below:

scRNAseq.sce <- toSingleCellExperiment(SCEset)
Error in toSingleCellExperiment(scRNAseq.eset) :
methods::is(object, "SCESet") is not TRUE

Any ideas or suggestions? Thanks!

[Ram]

What is the output of class(SCEset)?

[shuaizh117]

Here is the output:

[1] "ExpressionSet"
attr(,"package")
[1] "Biobase"

Answer 1

[shuaizh117]

Actually figured it out by myself. You just need to convert ExpressionSet to SummarizedExperiment format first, then convert SummarizedExperiment to SingleCellExperiment.

[Ram]

Please accept your own answer to resolve the post.