multimodal-omics-integration
Installation
SKILL.md
Multimodal Omics Integration
Overview
Combine modalities measured on the same spots or cells, or several sections of the same tissue, into one representation. Output: joint latent spaces and clusters, denoised protein maps, integrated sections, transferred labels and signature scores on the tissue.
| Question | Method | Module |
|---|---|---|
| RNA + protein on the same spots / cells | totalVI | 1-2 |
| RNA + chromatin accessibility on the same cells | MultiVI | 3 |
| Several sections or samples, one modality | BBKNN | 4 |
| Labels from an annotated section onto a new one | scanpy ingest | 5 |
| Pathway or cell state activity on tissue | sc.tl.score_genes |
6 |
| Unsupervised factors across 2+ omics | MOFA+ | mofaplus-multi-omics |