create.qmd

# Create SDM

```{mermaid}
%%| label: fig-process
%%| fig-cap: "Diagram of SDM data preparation and model fitting."
%%| file: diagrams/sdm-process.mmd
```

# Prepare Data

```{mermaid}
%%| label: fig-prep
%%| fig-cap: "Diagram of SDM data preparation for model fitting."
%%| file: diagrams/sdm-prep.mmd
```

-   **obs\
    **observations: occurrences from OBIS; masked by FAO regions defined by AquaMaps [@aquamapsdata]
    -   **presence**\
        OBIS: species occurrence
    -   **absence**\
        OBIS not-species, but same family
-   **env\
    **environment
-   **tbl**\
    table of observations (presence and absence) with environmental values

## Environmental Predictors

### Physiographic

-   `depth`\
    Bathymetric Depth

-   `d2coast`\
    Distance to Coast

-   `d2shelf`\
    Distance to Shelf

### Time Varying

-   `vgpm`\
    Vertically integrated primary Productivity model

### Depth & Time Varying

-   `temp`\
    Temperature, either sea-surface temperature (SST) or some modeled product from HyCOM, ROMS or Copernicus

-   `salin`\
    Salinity