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I am trying to run this code for a mouse dataset (https://ccc-protocols.readthedocs.io/en/latest/notebooks/ccc_R/QuickStart.html):
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# Generate list with ligand-receptors pairs in DB
lr_pairs %…
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Hi Dr. Jin,
I have single cell data from two different organs, A and B, respectively. I intend to find the ligand-receptor interaction pairings between the two organs. Therefore, I have directly me…
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**Reported by anhi on 15 Jul 38810925 03:06 UTC**
The code by Silke Jansen for LIGPLOT-like functionality should be merged into master.
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Dear authors,
The liana_tensor_c2c took 4.5 hours to run but failed with the error: 'PreBuiltTensor' object has no attribute 'elbow_metric_raw' . But the code of liana_tensor_c2c showed that elbow…
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Dears,
First, thanks a lot for this wonderful package that helps me to analyse and understand more about my scRNA data.
I have a question regarding the CellChatDB, it contains an interaction table t…
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Hi,
I have mouse data and therefore tested if its possible to run Celltalker using a different database than the ramilowki DB.
A nice overview of available interaction DBs are here: https://githu…
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Dear developers,
thanks for providing this great tool! I have used your package for a while now, but when thinking a bit more about my results, I was wondering how exactly the ligand-target-matrix…
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Hello!
I'm currently exploring spatial transcriptomic data from colorectal cancer tissues using stlearn. I would like to know if there is a method in stlearn to quantify the receptor ligand interacti…
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Hi Suoqin,
This is probably a silly question. I was wondering if there's a way to generate or see (either by creating a dataframe or table) a list of all the pathways and the receptor-ligand intera…
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Hi. I have a receptor-ligand complex and I'm trying to generate plots to visualize the various types of interactions between the receptor and ligand proteins. The complex has 166 residues in total wit…