| # scripts/common | |
| system-agnostic training + eval + inference. everything here takes a system name | |
| (`pan_skin`, `hematopoiesis`, `pancreas`) as an argument and expects the corresponding | |
| `data/corpus/{system}/harmonized/corpus.h5ad`. | |
| | script | what it does | | |
| |---|---| | |
| | `train_panda.py` | train one PANDA variant (pca / marker) on one system | | |
| | `cv_holdout.py` | 5-fold held-out CV (GroupKFold by dataset when available) | | |
| | `zero_shot.py` | run PANDA checkpoints on Dingwall / Dahlin / Veres targets | | |
| | `nestorowa_zero_shot.py` | labeled zero-shot on Nestorowa GSE81682 (HSC validation) | | |
| | `extract_prototypes_for_analysis.py` | prototype extraction helper for downstream analysis scripts | | |
| | `rerun_all_discovery.sh` | driver that re-runs the whole `scripts/analysis/` block end to end | | |