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**LAST EDITED: Aug, 29, 2024**
See parent Epic for further information.
https://github.com/chanzuckerberg/single-cell/issues/644
See current draft for spatial support in SOMA https://docs.goog…
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### Report
What a wonderful tool for spatial data!
Sadly I met a series of errors when using cc.pl.plot_boundaries, and I noticed that you are updating 'plot_boundaries()', I am curious about when c…
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Hi,
I have some visium data sets on which I would like to try CellChat. Is it possible for CellChat to do this?
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Here is the reviewer's comment:
The provided source code does not include any documentation regarding how should the code by used, in what order, under which software requirements and includes hard…
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Hi! Thank you for the exceptional package.
I am hoping to run NMF on 36 integrated visium reactions. They have been processed with the Seurat pipeline and integrated after SCT transformation. Do y…
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Thank you very much for `bin2cell`.
@ktpolanski is `b2c.view_labels()` in 0.3.2 the unformalized custom function @nadavyayon referred to and was using at 18 minutes and 35 seconds (18:35) in the Se…
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Hi there, when i use SMTa for microbe analysis in visium data, i noticed that the nt database is too large and time consuming.
![114027](https://github.com/affinis/SMTa/assets/36031820/17f79c24-88b0-…
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I retrieving the Visium spot from a mask.
I found the procedure a little bit slow.
Is it possible to parallelize the following code?
```
# Determine which spots are within the mask
points_wi…
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Dear Professor,
Thanks for your explanation and patience! I want to know how can I find the DLPFC dataset in the tutorial:
anno_df = pd.read_csv('./data/spatialLIBD/barcode_level_layer_map.tsv',…
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Hi, thank you for the great method! I try to apply it to my Visium dataset but I got the following warnings for all my samples on conversion step:
`
[2021-12-29 13:40:49,020] ℹ : Running xfuse vers…