Hi @jeremyinseattle. The dataset in the paper used visium data and annotated cell type by a tool name cell2location, and I use this reference: Human MTG 10x SEA-AD - brain-map.org, not MERFISH. Or it is hard to annotate cell type that scatter in tissue like astrocyte and microglia using seurat transfer method? The seurat vignette annotated visium data but for cell types that in layer but not scatter. Maybe that is why the author used cell2location. I really appreciate your help!
Chris_D
7
Related topics
| Topic | Replies | Views | Activity | |
|---|---|---|---|---|
| About cell type for middle temporal gyrus reference dataset | 0 | 42 | November 14, 2024 | |
| Cell type annotation middle temporal gyrus | 1 | 58 | December 16, 2024 | |
| Subclass definition, 052 Pvalb Gaba | 1 | 59 | April 14, 2026 | |
| How to assign cell type labels to my 10X dataset using Allen Brain as a reference atlas? | 2 | 789 | August 29, 2022 | |
| Where can I download single nucleus RNA-seq data from human cortex? | 2 | 1372 | August 22, 2019 |