Speed of Cell-Cell interaction analysis on scRNA-seq data

Question

[Song]

Hi all,

i am trying to perform Cell-Cell interaction analysis on scRNA-seq data processed by Seurat. And I'm using Cellchat for analysis package, but it is taking forever, I have about 10k cells in each samples. and total sample numbers are 8. By the way, my computer have 12 CPU core num. If there is a more faster way or package of cell-cell interaction analysis (LR-interaction)?

Any anwsers would be appreciated.

Answer 1

[t.fosk]

You can try nichenet, specifically i am trying to setup multinichenet and it allows for parallelization based on the cores that you have. (though its a bit different than cellchat)

Answer 2

[gglim]

Have you tried this command ? future::plan("multiprocess", workers = num_of_cores)

I found it in my previous script but I'm not sure if it worked.