How to merge biological replicates and do comparison analysis?

[kiwipeel]

Hi,

I have single cell data with 2 condition and 4 replicates in each condition.

In the tutorial why do we use directly cellchat object derived from only conditions? Why dont we create a cellchat object for each individual and merge them ?

I have tried to create cellchat object for each of my replicates and tried to merge them according to their conditions but it doesnt work.

[sqjin]

@kiwipeel In most cases, we are interested in the signaling difference between different biological conditions, and thus we only want to compare the CCC between different conditions. In CellChat, we create one cellchat object for each condition, and then perform comparison analysis.