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fixes #135
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VLucet committed May 25, 2023
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Expand Up @@ -67,7 +67,7 @@ The key workflow steps are:
2. The region within the boundary is discretized into patches with the `spm_discretize()` function, creating a `sspm_discrete_boundary` object.

* Spatiotemporal smoothing of biomass and environmental predictors using GAMs.
3. The `spm_as_dataset()` function turns user-provided data frames of raw observations into `sspm_dataset` objects that explicitly track locations, data types, and aggregation scales for each input. `sspm` recognizes three types of data: **trawl** (i.e. biomass estimates from scientific surveys), **predictors**, and **catch** (i.e., harvest).
3. The `spm_as_dataset()` function turns user-provided data frames of raw observations into `sspm_dataset` objects that explicitly track locations, data types, and aggregation scales for each input. `sspm` recognizes three types of data: **trawl** (i.e., biomass estimates from scientific surveys), **predictors**, and **catch** (i.e., harvest).
4. The `spm_smooth()` uses GAMs to calculate spatially smoothed yearly estimates of biomass and environmental predictors for each patch from trawl-level data, based on the spatial structure from the `sspm_discrete_boundary` object. The user specifies a GAM formula with custom smooth terms. The output is another `sspm_dataset` object with a `smoothed_data` slot which contains the smoothed predictions for all patches.

* Computation of surplus production based on biomass density and fishing effort.
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