-
Dear cellphonedb team,
Thank you for developing this valuable tool!
I have been following the tutorial: https://github.com/Teichlab/cellphonedb#generating-user-specific-custom-database
Howeve…
-
Hi,
Thanks for creating the tool! I am trying to pipe my expression and metadata from R to cellphonedb. But no matter how I transformed the expression data (raw, downsample, downsample and log-tra…
-
Dear,
When I try "cellphonedb plot dot_plot" and "cellphonedb plot heatmap_plot meta_data" on test data, the following error occurred:
Segmentation fault (core dumped)
last week I ran this code…
-
Hi,thanks for your great database and tool . CellPhoneDB is suitable for the analysis of human samples.
When I want to analyze a sample of mice, how do I analyze it? I currently have only one file c…
-
I would like to modify the permutation statistic (currently `mean(R1-L1) in cluster1-cluster2`) to reflect specificity rather than expression level of genes. Specifically I would like to divide `mean(…
vitkl updated
4 years ago
-
Hej!
I am using your web interface at https://www.cellphonedb.org/explore-sc-rna-seq and have troubles uploading my scRNAseq data.
I have a murine dataset, but have translated all gene names to …
-
Hi,
I am using NicheNet for a single-cell RNA-seq dataset.
Based on the FAQ, the ligands with Pearson score > 0.1 might be interesting. So I applied 0.1 as cut off and overlap these ligands with…
-
Dear team,
Thanks for the beautiful work. I am wondering, is it possible that we can still use your database, but only use a subset of it? For example, we only care about neurotransmission in some …
-
Hello,
Thank you for this great package! I just had an ongoing issue with precision of p-values. Even after I set --result-precision 4 to achieve 4 decimal places, I still get p-values of 1, 0.9, 0…
-
Hi. Thanks for building this excellent tool!
I have a scRNAseq dataset with mouse genes. When I try to convert them to human orthologs, I ran into some trouble.
I used R package "biomaRt" to perfo…