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Teichlab / cellphonedb

MIT License
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count_network #340

Closed cadyyuheng closed 2 years ago

cadyyuheng commented 2 years ago

Hello,

I'm wondering if we could get more description on how the count_network.txt file is generated, especially how it is defined. Thanks!

prete commented 2 years ago

Hi @cadyyuheng count_network.txt is generated by this R script: https://github.com/Teichlab/cellphonedb/blob/master/cellphonedb/src/plotters/R/plot_heatmaps.R

The chunk that generates the file counts the total number of interactions between two clusters. The headers ('SOURCE','TARGET','count/) may be a bit misleading because the file will have the same count for cluster A|B than for B|A, it counts total interactions an not just directional ones. That being said, it's useful to quickly see which clusters interact the most with each other.

cadyyuheng commented 2 years ago

@prete , thanks so much for the clarification -- It definitely makes more sense for me now!