Jingyu (Gavin) Li
Jingyu (Gavin) Li
Hi, still not solved. Could you please help us?
@nx10 Thank you for your warm reply. I have solved it by "dev.off()", then plot again and the device will open and work well(@renkun-ken hope it helps). Thank you for...
> Thanks for the wonderful resource! I had trouble locating the cells assignment to metacells. If possible, can you please point to the relevant location? hello, you mean the code...
I think what you want is there: results/rna/metacells/all_cells/metacells_metadata.txt.gz
After going through your codes roughly, I think I basically understand the way you do this. The interpolation part and the scChromHMM part are separately done, although the anchors are...
And I think the reason why you don't use all the imputed 20,000 cells is that you need fragments files for forward–backward algorithm, however the information is lost when doing...
And I have only one question left: I am not familar with Rust, as far as I can tell, for each anchor cell in CITE-seq, you can only get anchors...
> Nevertheless, I am working on another version of the method [here](https://github.com/parazodiac/scChromHMM), which dumps the required files. It's relatively early days for the new method, but I'd let you know...
> I am not sure if I understand your follow-up question correctly, but just to clarify, we interpolate counts for all 20k CITE-seq cells. The data is sparse, you are...
> The (1) part of assembling is what you are describing above, i.e., if you are given individual marks and a mapping file between the profiled cells in the histone...