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ventolab / CellphoneDB

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
https://www.cellphonedb.org/
MIT License
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relevant_interactions_result don't have all celltype combinations. #119

Closed wangjiawen2013 closed 7 months ago

wangjiawen2013 commented 1 year ago

Hi, I cannot find some cell type combinations in the relevant_interactions_result file, For example, I have five celltypes: cluster1, cluster2, cluster3, there should be 9 combinations (cluster1|cluster1, cluster1|cluster2, cluster1|cluster3, cluster2|cluster1, cluster2|cluster2, cluster2|cluster3, cluster3|cluster1, cluster3|cluster2, cluster3|cluster3). However, I didn't find cluster2|cluster1 in the results. Does cellphonedb discard the combinations that do not have relevant interactions ?

ktroule commented 1 year ago

Hi.

Sorry for not getting back to you sooner. Columns and rows where all interactions are non-significant or non-relevant (depending on the method) are dropped.

Regards