scSLAT: single cell spatial alignment tools
scSLAT package implements the SLAT (Spatially-Linked Alignment Tool) model, which aims to align heterogeneous single cell spatial data fast and accurately. scSLAT works well on various spatial technologies (such as Visium, MERFISH, Stereo-seq, seqFISH, Xenium) and can extend to large datasets easily.
Key applications of scSLAT
Heterogeneous alignment: as the first method designed for heterogeneous spatial alignment, scSLAT enables
Cross technologies alignment: Stereo-seq and MERFISH, Visium and Xenium, …
Multi modalities alignment: spatial-ATAC-seq and Stereo-seq (with our previous work scglue).
Defining development changes: revealing spatial-temporal changes in time-series developmental datasets.
Atlas alignment: precisely align large single cell spatial atlas (200,000+ cells) in 3 minutes.
3D reconstruction: align multiple continuous spatial slices in parallel to rebuild 3D structure.
Getting started with scSLAT
Contributing to scSLAT
Single-cell spatial omics is still developing rapidly. We are happy about your contributions! Please submit Pull requests on our Github Repo. We think your contribution will make a big difference to community!