Cannot locate raw NES

[sierranishizaki]

First off, thank you so much for releasing this extremely helpful tool! The majority of the functions have worked well for me, and have been instrumental in my analysis of scRNA-seq data.

In the interest of further downstream analyses, I would love to be able to access the raw NES values clearly used for figure generation. However, I have been unable to locate them anywhere in the created object. Would you be able to point me in the direction of these raw scores?

Additionally, I encountered issues running these commands:

genes(res, features = mk) Error in cbind.Matrix(x, y, deparse.level = 0L) : invalid type "character" in 'cbind.Matrix'

Heatmap(res,group_by="cluster") No error, but it hangs and crashes RStudio

Any help would be greatly appreciated!

[guokai8]

Hi @sierranishizaki , The NES matrix can be found in the as.data.frame(res). Back to the issues you had, I am not sure what your results look like. Could you please show the results you had? Best, K