Tjcyz

> for me it helped to add `sources.use` and `targets.use` as a parameter to `subsetCommunication()`. Otherwise only certain _groups_ are visualized but _interactions_ from all groups are included. Furthermore you...

> @tomthomas3000 The tutorial on this part is correct. When you merged your two cellchat objects, is the order as follows: "condA" and "condB"? If so, when identifying up-regulated interactions...

> @tomthomas3000 The tutorial on this part is correct. When you merged your two cellchat objects, is the order as follows: "condA" and "condB"? If so, when identifying up-regulated interactions...

> @Jaimomar99 You are right that you will get different results in the last two cases. > > When running `subsetCommunication(cellchat_object, net = net, datasets = "healthy", ligand.logFC = 0.1,...

> @sqjin net.up and net.down appears to look good, at least when I sort by FC, the ligand and receptors do make sense. I think the problem might lie with...