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docs: added pairwise alignment GUI video
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danilexn authored Apr 18, 2024
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Expand Up @@ -183,11 +183,11 @@ We provide a video showcasing the GUI, with an illustrative example of refinemen
__[Walkthrough of the GUI for manual alignment]__ by @danilexn – :octicons-clock-24:
5m – Learn how to visualize and align STS and imaging data in a step-by-step guide.

[Walkthrough of the GUI for manual alignment]: https://www.youtube.com
[Walkthrough of the GUI for manual alignment]: https://youtu.be/Fjh4huosVPY

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## Expected output
After running the automatic or manual alignment, you must have a single `h5ad` file, containing the transformed spatial coordinates.
This will be used in the following step to aggregate the transcripts by a spatially-corresponding cell, in order to get a cell-by-gene
matrix that can be used in later downstream analysis.
matrix that can be used in later downstream analysis.

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