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Hi there,
I was going over the code, specifically the 5. cell-cell communication. Could you please let me know what are the input files for line 16 ( allfiles=list.files(pattern = 'module.expMat.txt…
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I am wondering if it is possible to obtain a matrix of individual cell-cell communication values instead of the cluster one?
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After I run mebo_obj.commu_network_plot it says
[June 17, 2024 22:24:37]: show communication in cells by network plot
[June 17, 2024 22:24:37]: No communication events under pval_cutoff:0.05 and com…
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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 valu…
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Hi Rongbin,
Thank you for providing such a useful tool. I've tested Mebocost on my personal scRNA-seq dataset, and it worked beautifully. I’m wondering whether you will include functions for direc…
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Hello
I followed tutorial https://github.com/zcang/COMMOT/blob/main/docs/notebooks/visium-mouse_brain.ipynb on one of the 10x visium based ST test data in our lab.
![image](https://github.com/…
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Hi, I used celphonedb to infer cell cell communication and I got some negative values of both lr-means, receptor-means and ligand_means. Does my data have issues or if not, how can I interpret these n…
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Hi, thank you so much for the great tool! I have a question about how to infer cell-cell communication networks.
I wanted to see interactions between EP (source) and OB (target) or EP (source) and F…
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Hi, thank you so much for such a great package.
I've been trying to use liana to compare cell-cell communication within my dataset of three conditions. And I was wondering how are the frequency of …
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I would appreciate it if you can help me. Not sure how to fix it.
> tensor
Flu09 updated
3 weeks ago