Jun Zhao

Results 8 comments of Jun Zhao

GetAssayData(pbmc, slot = "counts") gives 0 x 0 matrix

Hi @Lumskie, ALRA result will be saved in the `data` slot, rather than `counts` slot. Could you try `exprMat

DAregion fails with confusing error message if no cells are DA

Hi @HectorRDB, thank you so much for your interest in DAseq. Your tests are highly appreciated and I will update the code accordingly. Best, Jun

Can I use ALRA imputed matrix to perform the `Find Marker Gene` step ?

Thanks for your interest in ALRA! Yes, you can run "Find Marker Gene" step after ALRA in the downstream analysis.

big data set and K

Thanks for your interest in ALRA! And sorry for the very late response. To better understand your question, could you provide the estimated k values by ALRA for the whole...

Using DAseq after integrating multiple datasets

DAseq will work on data after integration. For example, in the DAseq [tutorial](https://klugerlab.github.io/DAseq/articles/tutorial.html), `X.melanoma` is the PCA embedding of the data after integration, and this would be the input of...

Using DAseq after integrating multiple datasets

This is a warning when DAseq calls the clustering function `tclust` (package info [here](https://www.rdocumentation.org/packages/tclust/versions/1.4-1/topics/tclust)). `restr.fact` is a parameter in the function `tclust`, which can be passed when calling the function...

R breakdown in getDAcells procedure

Hello, thanks for your interest in DAseq. Could you provide the messages you got when you ran `getDAcells` and your machine/server specifics?

Getting started after integration

Hi @KeeBak , thank you for your interest in DAseq! I think you could try the following. ``` labels_res