output ALL LR interactions

Open LucaTucciarone opened this issue 3 years ago • 3 comments

Hey guys, Wanted to understand if it is possible to output ALL the interactions using the "computeCommunProb", also the not significative (as it seems that the threshold is automatically set to 0.05)

Mar 17 '22 03:03 LucaTucciarone

@LucaTucciarone df.net <- subsetCommunication(cellchat) works. you can also adjust the threshold.

Mar 17 '22 11:03 sqjin

@sqjin If I do that it gives me back only significative interactions. I would need all interactions, also pvalue >0.05 to then perform fdr

Mar 17 '22 15:03 LucaTucciarone

Hey Luca, If I understood correctly, without using default params, we can change in number of interaction. I mean : computeCommunProb(cellchat, type = 'truncatedMean',trim = 0 ) It gave me the highest number of possible interactions through my data

Sep 05 '22 13:09 aliei11