search

saeyslab / nichenetr

NicheNet: predict active ligand-target links between interacting cells
483 stars 118 forks source link

Error in DE analysis #86

Closed smilesw closed 3 years ago

smilesw commented 3 years ago

hello, thanks for developing nice tools. I ran into unpredicted errors when getting log fold change information of ligands from sender cells as follows.

DE_table_all = Idents(kidney) %>% levels() %>% intersect(sender_celltypes) %>% lapply(get_lfc_celltype, seurat_obj = kidney, condition_colname = "group", condition_oi = condition_oi, condition_reference = condition_reference, expression_pct = 0.10) %>% reduce(full_join)

--> Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘reduce’ for signature ‘"list"’

I don't know where it comes from. Is a certain package necessary? Would you give me a help to solve this error? Thanks in advance.

browaeysrobin commented 3 years ago

Hi @smilesw

Can you try purrr::reduce instead of reduce?

smilesw commented 3 years ago

Thank for your answer. Although I perform analysis of log fold change after "library (purrr)", it did not work. However, "purrr::reduce" instead of "reduce" works. I really appreciate your guide.