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BinDuan committed Feb 27, 2024
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Expand Up @@ -4,7 +4,7 @@ Multi-slice **Spa**tial Transcriptome **Do**main Analysis.
![](Overview.png)<!-- -->
**Fig 1. Workflow of SpaDo.** **a.** Calculating the SPACE for both single-cell resolution and spot resolution spatial transcriptomic data. SPACE: SPatially Adjacent Cell type Embedding. **b.** Three functions involved in multi-slice spatial domain analysis: multi-slice domain detection, reference-based spatial domain annotation, and multi-slice clustering analysis by consideration of spatial domain composition. JSD, Jensen Shannon Divergence.
## Overview
With the rapid advancements in spatial transcriptome sequencing, multiple tissue slices are now available, enabling the integration and interpretation of spatial cellular landscapes. Herein, we introduce SpaDo, a tool for multi-slice spatial domain detection, annotation, and downstream analysis at both single-cell and spot resolutions. SpaDo includes modules for multi-slice spatial domain detection, reference-based annotation, and multi-slice clustering. We demonstrated SpaDo's effectiveness with over 40 multi-slice spatial transcriptome datasets from 7 sequencing platforms. Our findings highlight SpaDo's potential to reveal novel biological insights in multi-slice spatial transcriptomes.
With the rapid advancements in spatial transcriptome sequencing, multiple tissue slices are now available, enabling the integration and interpretation of spatial cellular landscapes. Herein, we introduce SpaDo, a tool for multi-slice spatial domain analysis, including modules for multi-slice spatial domain detection, reference-based annotation, and multiple slice clustering at both single-cell and spot resolutions. We demonstrate SpaDo's effectiveness with over 40 multi-slice spatial transcriptome datasets from 7 sequencing platforms. Our findings highlight SpaDo's potential to reveal novel biological insights in multi-slice spatial transcriptomes.

## Installation
* **SpaDo** package can be installed from Github using **devtools** packages with **R>=4.0.5**.
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