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jinworks / CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
GNU General Public License v3.0
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Using CellChatDB for array data #111

Open ManarRashad opened 2 months ago

ManarRashad commented 2 months ago

Dears, First, thanks a lot for this wonderful package that helps me to analyse and understand more about my scRNA data. I have a question regarding the CellChatDB, it contains an interaction table that contains ligands and multimeric receptors. For example, the contents of the ligand is 1 value like "TGFB1" and the contents of the receptor are multimeric receptors for example: ACVR1B_TGFbR2.

If I would like to use the CellChatDB to analyze the interaction between ligand and receptors in bulk array data within different samples, is it okay to separate the multimeric receptors? I mean to make ligand "TGFB1" corresponding to "ACVR1B" and in another row that ligand "TGFB1" corresponding to receptor "TGFbR2"

Please help Thanks in advance

sqjin commented 2 months ago

@ManarRashad While it is OK to separate the multimeric receptors like the way in other tools, we think it is more accurate when using multimeric receptors.