期刊
BMC BIOINFORMATICS
卷 21, 期 1, 页码 -出版社
BMC
DOI: 10.1186/s12859-020-3489-7
关键词
Spatial transcriptomics; Cluster analysis; Data visualization; R package
类别
资金
- Knut and Alice Wallenberg Foundation
- Swedish Foundation for Strategic Research
- Swedish Research Council
- Science for Life Laboratory
- Royal Institute of Technology
Background: Technological developments in the emerging field of spatial transcriptomics have opened up an unexplored landscape where transcript information is put in a spatial context. Clustering commonly constitutes a central component in analyzing this type of data. However, deciding on the number of clusters to use and interpreting their relationships can be difficult. Results: We introduce SpatialCPie, an R package designed to facilitate cluster evaluation for spatial transcriptomics data. SpatialCPie clusters the data at multiple resolutions. The results are visualized with pie charts that indicate the similarity between spatial regions and clusters and a cluster graph that shows the relationships between clusters at different resolutions. We demonstrate SpatialCPie on several publicly available datasets. Conclusions: SpatialCPie provides intuitive visualizations of cluster relationships when dealing with Spatial Transcriptomics data.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据