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Update README.md
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Colin J. Carlson authored Feb 26, 2021
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Expand Up @@ -8,43 +8,43 @@ Scripts are organized into seven folders marking different stages of the pipelin

```
A: Prepare data
|- A1 Re-rasterize rodents.R
|- A2 Soil macronutrient kriging.R
'- A3 SoilGrids resampling.R
β”œβ”€ A1 Re-rasterize rodents.R
β”œβ”€ A2 Soil macronutrient kriging.R
└─ A3 SoilGrids resampling.R
B: Extract and generate model datasets
|- B1 Process and load environmental layers.R
|- B2 Extract NWDP data.R
'- B3 Extract human data.R
β”œβ”€ B1 Process and load environmental layers.R
β”œβ”€ B2 Extract NWDP data.R
└─ B3 Extract human data.R
C: Main models and attribution models
|- C0 Reload environment.R
|- C1 Wildlife baseline model.R
|- C2 Human baseline model.R
|- C3 Wildlife attribution model.R
'- C4 Human attribution model.R
β”œβ”€ C0 Reload environment.R
β”œβ”€ C1 Wildlife baseline model.R
β”œβ”€ C2 Human baseline model.R
β”œβ”€ C3 Wildlife attribution model.R
└─ C4 Human attribution model.R
D: Data visualization
|- D1 Main figures.R
|- D2 Partial dependence multipanel.R
|- D3 Ternary.R
|- D4 Variable importances.R
|- D5 Alternate model maps.R
|- D6 Spartials.R
|- D7 Alternate model 1 partial figures.R
'- D8 pH GAMs.R
β”œβ”€ D1 Main figures.R
β”œβ”€ D2 Partial dependence multipanel.R
β”œβ”€ D3 Ternary.R
β”œβ”€ D4 Variable importances.R
β”œβ”€ D5 Alternate model maps.R
β”œβ”€ D6 Spartials.R
β”œβ”€ D7 Alternate model 1 partial figures.R
└─ D8 pH GAMs.R
E: Cross-validation on withheld data
'- E1 Cross-validation 2000 to 2005.R
└─ E1 Cross-validation 2000 to 2005.R
F: Generate alternate datasets
|- F1 Wildlife Alt2 Pseudoabsences.R
'- F2 Wildlife Alt3 Just coyote.R
β”œβ”€ F1 Wildlife Alt2 Pseudoabsences.R
└─ F2 Wildlife Alt3 Just coyote.R
G: Alternate models
|- G0 Reload environment - alt for elevation.R
|- G1 Wildlife Alt1 full variables.R
|- G2 Human Alt2 full variables.R
|- G3 Wildlife Alt2 pseudoabsences.R
'- G4 Wildlife Alt3 coyote model.R
β”œβ”€ G0 Reload environment - alt for elevation.R
β”œβ”€ G1 Wildlife Alt1 full variables.R
β”œβ”€ G2 Human Alt2 full variables.R
β”œβ”€ G3 Wildlife Alt2 pseudoabsences.R
└─ G4 Wildlife Alt3 coyote model.R
```

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