sdmTMB-TESA-2025

DFO TESA Workshop 2025

November 4-6 2025

sdmTMB:

https://CRAN.R-project.org/package=sdmTMB

https://github.com/pbs-assess/sdmTMB

https://pbs-assess.github.io/sdmTMB/index.html

DFO-specific install instructions

https://github.com/pbs-assess/sdmTMB-TESA-2025/blob/main/00-install.Rmd

Shared Google Docs notes and questions

https://docs.google.com/document/d/1tCldIs2B9-AeCZM-6ss8Qhn2MSw4wtxKuXkjoRzgneg/edit?tab=t.0

Draft manuscript:

Paper on sdmTMB at the Journal of Statistical Software: https://doi.org/10.18637/jss.v115.i02

Exercises:

https://github.com/pbs-assess/sdmTMB-TESA-2025/tree/main/exercises

Slides:

1. Introduction to the course, random fields, and the SPDE

2. Introduction to sdmTMB

3. Spatial modeling of Pacific cod example

4. Spatiotemporal modeling of Pacific cod example

5. Model comparison and validation

6. Residuals

7. Families

8. Time-varying coefficients

9. Spatially varying coefficients

10. Area-weighted index standardization

11. Data integration

12. Forecasting

13. Simulation

Additional topics:

• Random fields with physical barriers

• Priors and parameter bounds

• Spatial modeling of presence-only data

• Related packages, troubleshooting, Q+A, tips

GitHub folder for these slides:

https://github.com/pbs-assess/sdmTMB-TESA-2025

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