These are notebooks from specific projects. I keep them because they contain useful context and worked examples, but they may still refer to project-specific files, labels, or inputs.
| Project group | Contents |
|---|---|
| MAP | RNA/ATAC and downstream analyses |
| GSE171145 | External single-cell cohort workflow |
| MGI organoids | Bulk RNA QC, GSEA, and Hallmark scoring |
| TRENTO biomarker ML | Model and reporting notebooks |
| TCGA MOFA | TCGA multi-omics workflows |
| CPTAC LUAD | Multi-omics scoring workflows |