StereoMap

StereoMap is an advanced platform designed for the visualization and exploration of spatial omics data. It facilitates the complete workflow from sequencing to visualization, covering processes from raw reads and image alignment to spatial localization and result visualization.

The platform serves as a starting point for building spatial expression maps by mapping sequencing reads to spatial coordinates on tissue sections. It integrates sequencing data with imaging to align and quantify reads on tissue sections, producing standardized spatial expression matrices.

Key Features

• Visualize and explore feature expression and spatial distribution within the tissue context.
• Investigate spatial co-expression between features.
• Cluster cells and binned regions with morphological validation across multiple spatial resolutions.
• Annotate spatial regions guided by tissue morphology.
• Export high-definition figures for reports and publications.

The platform provides demo data for various species and tissues, including rat brain, mouse small intestine, mouse embryo, and more, with different embedding methods and staining types. This data supports users in understanding and applying the platform's capabilities in their research.

For further assistance, users can refer to the Analysis Guide, which offers extended workflows, tool comparisons, and hands-on tutorials.