setup instructions

notebooks/agriculture/README.md

@@ -7,3 +7,41 @@ Using NASA remote sensing data, analyze changing trends in plantings. For each y
 Using NASA remote sensing data, prepare historical drought analysis for Niger and bordering countries. Estimate hectares of farmland where drought has occurred over the past 5 years.
 
 Combine the past 5 years of planting, drought, and conflict statistics to determine to what extent droughts and conflict may have impacted plantings.
+
+## Setup
+
+```bash
+conda create -n niger python=3.10
+conda activate niger
+pip install ipykernel
+python -m ipykernel install --user --n niger
+cd Repos # or any directory to save repositories
+git clone https://github.com/andresfchamorro/phenolopy.git
+cd phenolopy
+git checkout -b dev
+git pull origin dev
+cd ..
+pip install earthengine-api
+python -m pip install git+https://github.com/worldbank/GEE_Zonal.git
+pip install geemap
+pip install xarray
+pip install geojson
+pip install tqdm
+pip install dask[distributed]
+pip install plotnine
+pip install rasterstats
+```
+
+## Notebooks
+
+- **evi-reference.ipynb**: Extracts vegetation index for static crop areas, defines a baseline, and examines how the current season relate to the baseline.
+
+- **evi-timesat**: Seasonality analysis of EVI data.
+
+- **evi-classification.ipynb**: Random forest classifier to predict active crops based on seasonality parameters, based on example from https://learn.geo4.dev/Satellite%20Crop%20Mapping.html.
+
+- **evi-conflict.ipynb**: Overlay conflict data and EVI.
+
+- **crop-area-zs**: Zonal statistics of crop areas.
+
+- **drought.ipynb**: Drought analysis.

reports/agriculture/report.ipynb

@@ -2192,7 +2192,7 @@
     "**Accuracy of the Model**:  0.809  \n",
     "**R-Squared**:  0.227  \n",
     "\n",
-    "See more details in [notebook](evi-classification.ipynb)."
+    "See more details in [evi-classification notebook](../notebooks/evi-classification.ipynb)."
    ]
   },
   {
@@ -2235,7 +2235,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.10.10"
+   "version": "3.11.5"
   },
   "metadata": {
    "mystnb": {