| --- |
| license: other |
| tags: |
| - alzheimer |
| - oasis-1 |
| - structural-mri |
| - multimodal |
| - dementia-staging |
| pretty_name: TriFuse-AD OASIS-1 Three-Stage Dementia Staging |
| --- |
| |
| # TriFuse-AD: Honest Multimodal Benchmark for Three-Stage Dementia Staging on OASIS-1 |
|
|
| Code, processed data, results, and paper for a leakage-free benchmark of three-stage |
| cognitive classification (CN / VMD / AD) on the OASIS-1 cross-sectional cohort, plus |
| the proposed **TriFuse-AD** model (tri-planar CNN + slice-plane Transformer + gated |
| demographic fusion). |
|
|
| ## Key result (honest / negative) |
|
|
| On an age-restricted cohort (≥60, 198 subjects) with subject-level repeated 5-fold CV |
| (3 seeds, 15 runs/model), **no MRI-only network beats a plain tabular XGBoost |
| (Macro-F1 0.474)**, and TriFuse-AD (0.488 ± 0.066) does **not** significantly beat a |
| trivial DenseNet late-concat baseline (0.497 ± 0.062; paired permutation p = 0.55). A |
| no-MRI structured model reaches Macro-F1 0.480 — most recoverable signal is |
| morphometric/demographic, not learned from raw voxels. No clinical / diagnostic / |
| SOTA / MCI / cross-site claims. |
|
|
| ## Repository layout |
|
|
| | Path | Contents | |
| |------|----------| |
| | `src/` | `trifuse` package: data, models, training, eval, analysis | |
| | `scripts/` | experiment runner, table/figure/interpretability builders | |
| | `configs/` | model configs | |
| | `results/` | per-model OOF preds, summaries, tables, 27 figures | |
| | `paper/trifuse_ad.md` | full paper draft | |
| | `data_processed.zip` | preprocessed 2.5D + 3D arrays + `subjects_clean.csv` (1.5 GB) | |
| | `data/raw/*.tar.gz` | OASIS-1 cross-sectional discs 1–12 (16 GB) | |
|
|
| ## Reproducing |
|
|
| ```bash |
| pip install -r requirements # torch cu128, timm, monai, nibabel, xgboost, sklearn, ... |
| unzip data_processed.zip # -> data/processed_2d, processed_3d, metadata |
| python scripts/run_experiments.py --grid main # 11 models x 15 runs |
| python scripts/run_experiments.py --grid ablation # 6 variants |
| python scripts/make_tables.py && python scripts/make_figures.py |
| ``` |
|
|
| ## Cohort |
|
|
| OASIS-1, age≥60 → 198 subjects (CN=98, VMD=70, AD=30). Labels from CDR (0→CN, |
| 0.5→VMD, ≥1→AD). CDR and MMSE are **never** model inputs (label leakage). One volume |
| per subject (`*_111_t88_masked_gfc`). |
|
|
| ## License / data use |
|
|
| The `data/raw/` tarballs are the original **OASIS-1** cross-sectional release |
| (Marcus et al., 2007), redistributed here for reproducibility. OASIS data are subject |
| to the OASIS data-use terms; if you use them, cite the OASIS project and comply with |
| their agreement. Code and derived results in this repo are provided for research use. |
|
|
