NOAA-FIMS / FIMS

The repository for development of FIMS
https://noaa-fims.github.io/FIMS/
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[Feature]: Add one-step-ahead (OSA) residuals #546

Open Cole-Monnahan-NOAA opened 7 months ago

Cole-Monnahan-NOAA commented 7 months ago

Is your feature request related to a problem? Please describe.

OSA residuals are considered best practices for stock assessments but are unavailable in FIMS at the moment. They are needed to appropriate diagnose model misfit and give clues as to how to modify the model. Pearson residuals are a common approach but have some meaningful disadvantages.

Describe the solution you would like.

Add functionality for the user to request OSA residuals from the R side.

Describe alternatives you have considered

Pearson residuals can be done but are insufficient.

Statistical validity, if applicable

Thygesen et al. introduced their use in TMB models https://doi.org/10.1007/s10651-017-0372-4

and Trijoulet et al. applied them to compositions in stock assessments https://doi.org/10.1016/j.fishres.2022.106487

Describe if this is needed for a management application

No response

Additional context

WHAM and SAM both have these integrated in. For WHAM see R code to prepare inputs here run it here, data inputs here, and usage for compositions here.

Andrea-Havron-NOAA commented 2 months ago