Exploring Giotto Suite for spatial transcriptomic analysis

I walk through the Giotto Suite preprint (https://doi.org/10.1101/2023.11.26.568752), which covers a family of R packages for spatial transcriptomics.

Transcript

1. Giotto Suite: a multi-scale and technology-agnostic spatial multi-omics analysis ecosystem Chen et al. DOI: 10.1101/2023.11.26.568752 Presented by: Nick Eagles 2024/09/25
2. giottoPoints giottoPolygon giottoLargeImage
3. Fig S2C: Giotto object structure
5. Fig S5: segmentation at different spatial scales Cellular and nuclear segmentation of the same MERFISH data
6. Fig S5: Differences in vs out of cells
7. Fig S10: Multiomic Integration
8. RNA Protein Multi-omic Deconvolved SC
9. Fig S7: Comparison across technologies
12. Miscellaneous Notes - On-disk representations using database backend for points and polygons (dbPointsProxy and dbPolygonProxy) - Expression matrices stored as HDF5Matrix objects - Conversion utilities with SpatialExperiment, AnnData, and Seurat objects