Open sfpacman opened 1 month ago
I also have this issue, pls help
Hi,
This is likely related to perhaps using CellChatv2? I tried the latest version from the now archived CellChatv1 with which liana was designed to work with and it worked well.
Please try installing CellChat from https://github.com/sqjin/CellChat, and let me know if this works.
Hi Daniel, thank you so much for your time! I tried 1.0.0 and 1.5.0, both yielded the same error msg as sfpacman indicated above. I attached a preview of what the liana_test object looks like if that helps, and would be willing to provide other info. Thanks again.
I generated liana result from my single-cell dataset. However, I was unable to aggregate the CCC results if I included the cell chat output
The command used to generate liana result:
liana_res <- liana_wrap(sc_res, c('call_cellchat', "natmi", "connectome", "logfc", "sca", "cellphonedb"),idents_col ="final_cell_type")
Error Message:
This is the screenshot for the cellchat result ( it seems that it missed several columns that are found in other CCC output)