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Julia Blanchard edited this page Jan 8, 2019 · 9 revisions

Welcome to the mizer wiki!

Mizer is an R package to run multi-species size-spectrum models of fish communities. The package is on CRAN and therefore available from R's build-it package manager. All info about mizer is currently available in the Vignette embedded in the package.

Mizer can also be used to create web apps that allow users to explore models without the need to install R. An example of such an app investigates the effect of switching to a gear with a T90 extension net to reduce the catches of undersize hake and red mullet.

Mizer is still under active development, currently funded by the European Commission Horizon 2020 Research and Innovation Programme under Grant Agreement No. 634495 for the project MINOUW (http://minouw-project.eu/) and the Australian Research Council Discovery Project ("Rewiring Marine Food Webs").

Does your project or publication use mizer? If so, we'd love to know. You can also join our Google Discussion group here: https://groups.google.com/forum/#!forum/size-spectrum-models

Publications describing mizer:

  • F. Scott, J.L. Blanchard and K.H. Andersen: mizer: an R package for multispecies, trait-based and community size spectrum ecological modelling. Methods in Ecology and Evolution 5(10) 1121-1125 (2014). Contains the "official" announcement and description of mizer

Publications using mizer:

  • Zhang C, Chen Y, Xu B, Xue Y, Ren Y. Evaluating fishing effects on the stability of fish communities using a size-spectrum model. Fisheries Research. 2018 Jan 1;197:123-30.

  • Szuwalski CS, Burgess MG, Costello C, Gaines SD (2017) High fishery catches through trophic cascades in China. Proc Natl Acad Sci USA 114:717–721. Application to the South-east China Sea

  • N.S. Jacobsen, M. Burgess and K.H. Andersen (2017): Efficiency of fisheries is increasing at the ecosystem level. Fish and Fisheries 18(2) 199-211. doi:10.1111/faf.12171.

  • Zhang, C., Chen, Y., & Ren, Y. (2016). An evaluation of implementing long-term MSY in ecosystem-based fisheries management: Incorporating trophic interaction, bycatch and uncertainty. Fisheries Research, 174, 179-189.

  • Zhang C, Chen Y, Thompson K, Ren Y. Implementing a multispecies size-spectrum model in a data-poor ecosystem. Acta Oceanologica Sinica. 2016 Apr 1;35(4):63.

  • Zhang C, Chen Y, Ren Y. The efficacy of fisheries closure in rebuilding depleted stocks: Lessons from size-spectrum modeling. Ecological Modelling. 2016 Jul 24;332:59-66.

  • Spence M., Blackwell, P. & Blanchard J.L. (2016) Parameter uncertainty of a dynamic multispecies size spectrum model. Canadian Journal of Fisheries and Aquatic Sciences. 10.1139/cjfas-2015-0022 (In press) Bayesian parameter estimation and uncertainty

  • Datta, S. & Blanchard J.L. (2016) The effects of seasonal processes on size spectrum dynamics. Canadian Journal of Fisheries and Aquatic Sciences. 10.1139/cjfas-2015-0468 (In press)

  • Zhang, C., Chen, Y., & Ren, Y. (2015). Assessing uncertainty of a multispecies size-spectrum model resulting from process and observation errors. ICES Journal of Marine Science: Journal du Conseil, 72(8), 2223-2233.

  • Jennings, S. & Collingridge, K. Predicting Consumer Biomass, Size-Structure, Production, Catch Potential, Responses to Fishing and Associated Uncertainties in the World’s Marine Ecosystems. (2015) PLoS ONE 10(7), e0133794.

  • J.L. Blanchard, K.H. Andersen, F. Scott, N.T. Hinzen, G. Piet, S. Jennings (2014): Evaluating targets and trade-offs among fisheries and conservation objectives using a multispecies size spectrum model. J. Applied Ecology, 51: 612–622. doi:10.1111/1365-2664.12238. Application of mizer on the North Sea

Projects that have used/are using mizer:

The MINOUW Project (http://minouw-project.eu/) European Commission Horizon 2020 Research and Innovation Programme under Grant Agreement No. 634495

Rewiring marine food webs: predicting consequences of species range shifts. Australian Research Council Discovery Project DP170104240

Mesopelagic Southern Ocean Prey and Predators (MESOPP), European Commission H2020 (www.mesopp.eu)

Expert Working Group on Benchmarks for Ecosystem Assessment under EBFM. Lenfest Ocean Program

Marine Ecosystems Research Programme (MERP) (https://marine-ecosystems.org.uk). UK Defra - Natural Environmental Research Council

“Monitoring and Management of Deepwater Fisheries and Stocks” (Deepfishman) European Union Framework 7.

“Developing fisheries management indicators and targets” (DEFINEIT) European Marifish Joint Research project.

“Indicators for fisheries Management in Europe” (IMAGE) European Union Framework 6.

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