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hi, excellent work!
I have worked on cellphonedb database v2.0.0 smoothly.
But i have trouble in using my specific database.
I make interaction_file.csv include "partner_a, partner_b", and NULL col…
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@michalk8 couple of comments on the dotplot that could be improved/modified
- filtering by alpha doesn't seem to work
```python
adata = sc.datasets.pbmc3k_processed()
adata.raw = adata
sq.gr.li…
giovp updated
3 years ago
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Hello,
I am trying to use the dot_plot function but I am unable to save the plot. The plot appears for a quick second on my screen but disappears after that. The output directory gets created with …
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Is it possible to use cellphonedb as a python package in python scripts to query interactions without performing single cell specific analysis and without using the command line interface? Something l…
racng updated
4 years ago
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Hi,
I'm trying to understand how to set threads param in order to reduce the runtime.
I'm happy to subsample the dataset enabling the subsampling option, but at the moment I specify threads 4 and i…
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For example I have two experimental conditions and I run these separately through cellphoneDB, will the average expression data that it generates separately for both conditions be comparable?
Than…
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I am new to Bioinformatics. I was trying to extract the CellPhoneDB input files from a Seurat object and using instructions as mentioned [here](https://www.cellphonedb.org/faq-and-troubleshooting). H…
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Hi cellphonedb developers,
I am trying to install the cellphonedb package following the readme instructions. My code thus far is:
```
python3 -m venv cpdb-venv
source vpdb-venv/bin/activate
…
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Dear All,
I am facing some problems producing the dot plot after running my cellphone to my single cell data.
1)default option --> pdf
File is opened in adobe, but it warns that is to big and so …
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Hi guys!
In regards to complex interacting pairs, is there a simple way to get what ensembl id's are used in that complex?
For example, for a11b1 complex, I want to know what genes is cellphone…