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Hi, I would really like a way to print the percent expression and CPM values for the (minimally expressed) ligand and receptor in the results dataframe for li.mt.rank_aggregate() or any of the individ…
dnjst updated
12 months ago
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Hello,
Thank you for the wonderful software which help the investigation of cellular interaction.
I have some small questions about the result.
1) For the **"count_network.txt"** file, it contai…
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Hey, great package!
I am performing the differential analysis as described in your vignette on my own data. I'm presuming something is missing in my understanding of the outputs, but they are diffi…
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Hey,
Firstly，thanks for the great tool !
Can Giotto support cell-cell interaction analysis or ligand-receptor interaction analysis on merfish data？
Sincerely looking forward to your reply！
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Hello,
Not sure if this has been proposed yet but is there a way to save the model as a .pkl so that one could test data outside the training data set for performance? I was looking through the cod…
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Hello, first - very nice to finally see ligand receptor interaction connecting to gene expression :)
I am using nichenet through seurat and I was wondering whether it's possible to get a metric/scor…
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I'm using CellChat 2.1.1 and try to investigate the detailed ligand-receptor information. I have noticed that there are several new columns in `CellChatDB.human`, such as `ligand.symbol`, and `recepto…
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Hello CellChat Team,
I am currently working on a project using CellChat v2 and have encountered what seems to be a discrepancy in the tutorial regarding the extraction of ligand-receptor pairs. I w…
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Hi!
I used to PyMOL to add a molecule to a pdb file. PyMOL reads the new .pdb file just fine, but plip reads the added ligand incorrectly. Do you know what went wrong and how could I fix it?
Is t…
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Typically three types of output:
- Per-Spot Prediction Scores (SpatialDM/LIANA+/NICHES)
- Per slide - i.e. one summary of interactions for the whole slide/sample (COMMOT/MISTy/LIANA+)
- Per Source-Tar…