CellChat
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sqjin
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
Thank you very much for providing cellchat! When I run the function computeCommunProb on my data, I met below error ``` V59.cellchat str([email protected]) Formal class 'dgCMatrix' [package "Matrix"] with 6...
I have a few questions regarding the netVisualbubble function. First, how can you label the communication probability numerically? Also, is there a way to filter the probabilities, so that there...
Hi, I would like to ask how to identify whether cell components between two datasets are slightly or vastly different? For example, if cell components of two datasets are quite...
Hi, Thank you for the cool software! The tutorial which compares two populations with slightly different compositions has instructions as: "Since there are additional two populations (i.e., dermal DC and...
Hi @sqjin Congrats on this this great library. I am running some of the functions on my datasets and I came across an interesting observation. After DGE analysis, I am...
Hey, I've recently run the standard pipeline and we were surprised to see an interaction missing (Fasl - Fas) that we expected to see in the results. I checked the...
It works well when performing code before this line. Please help me to solve this. I can't skip this. And the following results are influenced by this error. future::plan("multiprocess", workers...
Hello! I can run cell-chat without any issue from a scRNAseq Seurat object but I'm finding problems with a ScanPy multiomics (rna+atacseq) object: This is how I load the dataset:...
I am currently working my way through the “Inference and analysis of cell-cell communication using CellChat” tutorial (https://htmlpreview.github.io/?https://github.com/sqjin/CellChat/blob/master/tutorial/CellChat-vignette.html) to analyze/visualize the cell-cell communication networks from scRNA-seq data. The CellChat input...
