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sqjin / CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
GNU General Public License v3.0
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The minimum number of cells that can be analyzed by CellChat #529

Open Gonglinjing opened 1 year ago

Gonglinjing commented 1 year ago

Hi Dr. Jin,

Thank you for the very useful tool! Recently, we found some problems when analyzing cell communication with cellchat. We would like to ask what is the minimum number of cells that can be contained in the same cell subgroup? We have analyzed subpopulations of cells with a cell count of 10 or even 5, although we can adjust the parameters to get results, but are these results accurate? Thanks for your help.

Best, Gong

sqjin commented 1 year ago

@Gonglinjing I do not suggest to consider the interactions between cell groups with less than 10 cells as it may be not a robust cell cluster. The function filterCommunication can filter out these interactions.