pantierra/efast-phenocam-validation
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added itb bti comparison.

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Felix Delattre 2026-06-17 11:55:42 +02:00
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README.md
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@ -1,6 +1,6 @@
# EFAST fusion with phenocam validation.
End-to-end pipeline from selecting sites from the global [PhenoCam Network](https://phenocam.nau.edu/) to run [EFAST](https://github.com/DHI-GRAS/efast) spatio-temporal fusion with Sentinel-2 / Sentinel-3 and validate GCCs accross sensors. The five numbered steps cover site selection, Sentinel data acquisition, different fusion orders, and accuracy metrics, all feeding a static web QA viewer.
End-to-end pipeline from selecting sites from the global [PhenoCam Network](https://phenocam.nau.edu/) to run [EFAST](https://github.com/DHI-GRAS/efast) spatio-temporal fusion with Sentinel-2 / Sentinel-3 and validate GCCs accross sensors. The numbered steps cover site selection, Sentinel data acquisition, different fusion orders, accuracy metrics, and sample-level statistics, all feeding a static web QA viewer.
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@ -13,6 +13,7 @@ End-to-end pipeline from selecting sites from the global [PhenoCam Network](http
| 3 | `3-sentinel-data.py` | Acquire S2 (Earth Search COG) and S3 OLCI SYN L2 (CDSE OpenEO); prepare REFL, DIST_CLOUD, and composite GeoTIFFs |
| 4 | `4-fusion.py` | Run EFAST BtI (fuse reflectance → GCC) and ItB (fuse GCC directly) for each screened site |
| 5 | `5-metrics.py` | Extract PhenoCam-matched timeseries, compute NSE/RMSE/r baselines and fusion metrics, emit per-site JSON and webapp manifest |
| 6 | `6-statistics-fusion-order.py` | Paired ItB-vs-BtI significance test (Wilcoxon + t-test) across all sites |
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@ -41,9 +42,10 @@ uv run python 2-phenocam-screening.py --evaluation-year 2025
uv run python 3-sentinel-data.py --evaluation-year 2025
uv run python 4-fusion.py --evaluation-year 2025
uv run python 5-metrics.py --evaluation-year 2025
uv run python 6-statistics-fusion-order.py --evaluation-year 2025
```
All steps accept `--evaluation-year` (default `2025`) and `--site` (optional, for single-site runs). Steps 3–5 are resumable — existing output files are skipped.
Steps 1–5 accept `--evaluation-year` (default `2025`) and `--site` (optional, for single-site runs). Step 6 is a full-sample aggregate and only accepts `--evaluation-year` and `--alpha` (default `0.05`). Steps 3–5 are resumable — existing output files are skipped.
```bash
# single site
@ -70,6 +72,7 @@ Step 3 S3 download uses CDSE OpenEO (`SENTINEL3_SYN_L2_SYN`). Set `CDSE_USER` an
| `fusion/{year}/{site}/bti/`, `.../itb/` | 4 | BtI fused reflectance + GCC; ItB fused GCC |
| `metrics/{year}/{site}/` | 5 | Per-site timeseries, metrics, covariates JSON |
| `metrics/manifest.json` | 5 | Webapp manifest (years + site metadata) |
| `statistics_fusion_order/{year}.json` | 6 | Paired ItB-vs-BtI test summary (NSE, RMSE, nRMSE, r) |
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