I have pre-annotated regions in QuPath and exported them as geoJSON files. Can these be loaded directly using scanpy or converted in some way so that I may perform spatially-aware DE of my Visium data?
Related topics
Topic | Replies | Views | Activity | |
---|---|---|---|---|
Analyse sub-sections of a spatial visium slide | 0 | 360 | April 28, 2023 | |
Data fomr new spatial transcriptomics from 10x | 5 | 1042 | March 8, 2023 | |
Deconvolute spatial transcriptomics (visium) with unannotated single-cell (10x) | 3 | 32 | July 10, 2025 | |
Spatial resolution artifacts outside of detected tissue | 8 | 125 | June 24, 2024 | |
Imaging data from seurat to scanpy | 1 | 929 | October 4, 2023 |