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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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Communication Patterns does not include all cell types #132

Open ShashTrip1 opened 5 months ago

ShashTrip1 commented 5 months ago

When i choose nPatterns based on the drop in the plot, (lets say 5), several cell types are left of the river plot. Does this mean I should increase the nPatterns despite showing lower Cophenetic values (<0.980).

sqjin commented 5 months ago

@ShashTrip1 This is because a higher cutoff is used when plotting the river plot.