read10XVisium

Read the spatial transcriptomics data measured on 10X Visium platform as a Seurat object, where the spatial coordinates are saved in the metadata, named "row" and "col".

Input of spatial data

Joint dimension reduction and spatial clustering is conducted for
Single-cell RNA sequencing and spatial transcriptomics data, and more details can be referred to
Wei Liu, Xu Liao, Yi Yang, Huazhen Lin, Joe Yeong, Xiang Zhou, Xingjie Shi and Jin Liu. (2022) <doi:10.1093/nar/gkac219>. It is not only computationally efficient and scalable to the sample size increment, but also is capable of choosing the smoothness parameter and the number of clusters as well.

Wei Liu

DR.SC

Joint Dimension Reduction and Spatial Clustering

Yi Yang

Jin Liu

read10XVisium function

<dl> <dt>dirname</dt>
<dd>A string, the dictory of Visium datasets</dd></dl>

Arguments

Author

Read the spatial transcriptomics data measured on 10X Visium platform — read10XVisium

<dl>

 <dt>dirname</dt>
<dd>A string, the dictory of Visium datasets</dd>

</dl>

read10XVisium: Read the spatial transcriptomics data measured on 10X Visium platform

Description

Usage

Value

Arguments

Author

Details

References

See Also

Examples