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Is there a way to apply the spatial transformations to the entire giotto object, including the images?
I am joining multiple gobjs via `joinGiottoObjects` shift method, each with several fovs. How…
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Hi,
I've just tried installing Giotto, however an issue arose when it came to install GiottoUtils, I tried a standalone installation and got the same error:
```
> pak::pak("drieslab/GiottoUtils…
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Hi,
I have not been able to run this below command. Is there a way to solve this?
spatDeconvPlot(visium, show_image = T, radius = 250, save_param = list(save_name = "spat_DWLS_pie_plot"))…
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1. identified_by: in the accession no. block, please could we put the value of the Elasticsearch 'display number' - still called 'accession number' in Linked Art?
2. For our texts, please could we di…
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Dear Authors ,
Thank you for reading my Issue.
I used SpatialDecon to deconvolute my Visium slide using a custom single cell data. I worked on them as a Seurat object as follows.
```
ann…
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**Submitting author:** @lizliz (Elizabeth Munch)
**Repository:** https://github.com/TeaspoonTDA/teaspoon
**Branch with paper.md** (empty if default branch): joss-paper
**Version:** 1.5.7
**Editor:** @…
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Dear developers,
Thanks for a great tool
I think I have encountered a depreciated function in your code
when running:
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Hello! I'm so sorry if this is answered somewhere - I searched issues and docs but didn't find anything. I'm trying to use giotto-tda on a cluster on which I don't have sudo privileges, and I can't se…
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Hello dear developers,
Giotto is a very powerful tool. In version 3.3, I tried to write the function getNoshiftSpatialLocs to obtain the coordinate position of each slice in a multi-slice sample …
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`pip install chalc`, version `3.1.1` fails when building wheel on mac for me. I include
[log file](https://github.com/user-attachments/files/16510110/chalc_3.1.1_error.txt) with the error. It ends w…