cynthier

Input contains NaN when LSI

11

Hello, when I use the scglue.data.lsi, it returned the error: Input contains NaN. Do you know how to figure out it? Thank you.

could not open the tutorial website

1

Hi, some tutorial links seem invalid, like the spatial data one. [Brief tutorial for CellChat analysis of a single spatial resolved transcriptomic dataset](https://htmlpreview.github.io/?https://github.com/jinworks/CellChat/blob/master/tutorial/CellChat_analysis_of_spatial_imaging_data.html)

I successfully installed peupertime with “build_vignettes=TRUE”. When I run the code browseVignettes(package = 'psupertime') in R studio, though I can view “Brief introduction to psupertime - [HTML](http://121.192.179.196:8787/library/psupertime/doc/psuper_intro.html) [source](http://121.192.179.196:8787/library/psupertime/doc/psuper_intro.Rmd) [R code](http://121.192.179.196:8787/library/psupertime/doc/psuper_intro.R)”...

Hi, thanks for your tools! Since the stereo-seq data is single-cell level, I follow the tutorial of single-cell ST data, using the custom LRs and pathway in the "Data". But...

confusion about the alignment results

1

Hi Dinithins, I am confused about the alignment results. Some gene expression patterns don’t align well with the results. For instance, Klf12 shows higher expression in the reference data, yet...

Dear author, When I set the n_prin_comps as 15, 20, 25 and 30, scrublet return estimated doublet rate 16.7, 57.1, 0, and 0. How can I determine the appropriate value...