ADMB computer program for multispecies-biomass dynamics model (NW_AtlEcosysConnect project)

Website: https://www.bco-dmo.org/dataset/543195
Data Type: model results
Version: 1
Version Date: 2014-12-12

Project
» CAMEO: Patterns of Connectivity in Northwest Atlantic Fishery Ecosystems (NW_AtlEcosysConnect)

Program
» Comparative Analysis of Marine Ecosystem Organization (CAMEO)
ContributorsAffiliationRole
Collie, JeremyUniversity of Rhode Island (URI-GSO)Principal Investigator
Kang, MinhoUniversity of Rhode Island (URI-GSO)Student
Copley, NancyWoods Hole Oceanographic Institution (WHOI BCO-DMO)BCO-DMO Data Manager

Abstract
ADMB computer program for multispecies-biomass dynamics model.


Dataset Description

This dataset includes the source computer code, an example data file, the executable program, and sample output. The sample biomass and catch data spans from 1979 to 2008 and is from the Northeast Shelf Large Marine Ecosystem. Regions for the analysis include: Georges Bank (GB), Gulf of Maine (GoM), and Southern New England (SNE). Model input is observed biomass and catch for multiple migrating and non-migrating fish species; model output includes predicted biomass for the species. The code was written for AD Model Builder by Minho Kang.  ADMB files are written as template files, e.g. multispecies.tpl. The template file is translated to C++, multispecies.cpp, which is compiled to multispecies.obj.

- source computer code: multispecies.tpl
- executable program: multispecies.exe
- example data file: multispecies.dat
- sample output: multispecies.rep
- description not available (not essential; generated automatically by ADMB): multispecies.cpp
- description not available (not essential; generated automatically by ADMB): multispecies.htp
- description not available (not essential; generated automatically by ADMB): multispecies.obj
- description not available (not essential; generated automatically by ADMB): multispecies.tds


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Related Publications

Kang, Minho, "MULTI-SPECIES INTERACTIONS IN FISH POPULATIONS ON THE NORTHWEST ATLANTIC COASTAL SHELF" (2014). Open Access Master's Theses. Paper 356. https://digitalcommons.uri.edu/theses/356 https://digitalcommons.uri.edu/cgi/viewcontent.cgi?referer=https://scholar.google.com/&httpsredir=1&article=1358&context=theses
Results

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Parameters

ParameterDescriptionUnits
descriptionDescription of the file text
fileLink to file text

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Project Information

CAMEO: Patterns of Connectivity in Northwest Atlantic Fishery Ecosystems (NW_AtlEcosysConnect)


Coverage: U.S. waters in the Northwest Atlantic coastal shelf, north of Cape Hatteras, NC, out to approximately -64W


Description from NSF award abstract:
The importance of fluxes across ecosystem boundaries is a characteristic of marine ecosystems that differentiates them from their terrestrial counterparts. From this viewpoint, any comparative analysis of marine ecosystems should address the patterns and degree of connectivity among ecosystems to be of highest utility. Here the investigators will conduct a suite of analyses that seek to quantify the sources, patterns and consequences of connectivity among 10 marine fishery ecosystems that together from the northwest Atlantic coastal shelf ecosystem. By conducting analyses in a hierarchical fashion with smaller ecosystems nested spatially within larger ecosystems they hope to identify scaling relationships in the ecological processes that characterize the dynamics of key species within these ecosystems. This work seeks to quantify the patterns and degree of connectivity among ecosystems in the Northwest Atlantic. Specifically, the investigators will conduct statistical analyses of empirical data from each ecosystem to quantify patterns in univariate, distribution and multivariate descriptors of their structure. They will also undertake time series analyses to describe relationships in the responses of different taxa and groups within each ecosystem. They will use the results of analyses conducted on the highly studied nearshore ecosystems as hypotheses to be tested on the somewhat sparser data of the offshore ecosystems. These analyses will delineate patterns of functional connectivity among ecosystems. They will also construct dynamic models of differing complexity to understand the principal consequences of the connectivity demonstrated in the first two objectives on ecosystem function. Models will include biomass dynamic and coupled predator-prey simulations that will consider the impacts of removals from the overall region globally and more specific patterns of localized spatial depletion.



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Program Information

Comparative Analysis of Marine Ecosystem Organization (CAMEO)



CAMEO Science Plan (2012).

The Comparative Analysis of Marine Ecosystem Organization (CAMEO) program was implemented as a partnership between the NOAA National Marine Fisheries Service and National Science Foundation Division of Ocean Sciences. The purpose of CAMEO was to strengthen the scientific basis for an ecosystem approach to the stewardship of our ocean and coastal living marine resources. The program supported fundamental research to understand complex dynamics controlling ecosystem structure, productivity, behavior, resilience, and population connectivity, as well as effects of climate variability and anthropogenic pressures on living marine resources and critical habitats. CAMEO encouraged the development of multiple approaches, such as ecosystem models and comparative analyses of managed and unmanaged areas (e.g., marine protected areas) that can ultimately form a basis for forecasting and decision support. Central to the program was the emphasis on collaborations between academic and private researchers and federal agency scientists with mission responsibilities to inform ecosystem management activities. (adapted from CAMEO website)

This funding opportunity implemented CAMEO research by supporting the development of research tools and strategic approaches through the following types of proposals:

1. Development of strategies and methodologies for comparative analyses that can be applied consistently across spatial and temporal scales and ecosystems, and that facilitate the design of decision support tools for marine populations, ecosystems and habitats.

2. Development of models that address key scientific questions by comparing ecosystems and ecosystem processes. Models that are geographically and temporally portable, and that incorporate assessment of modeling skill, are particularly encouraged.

3. Retrospective studies that analyze, re-analyze or synthesize existing information (historic, time-series, ongoing program, etc.) using a comparative approach.

4. Studies that integrate the human dimension within ecosystem dynamics. The CAMEO program seeks to promote interdisciplinary research using comparative approaches to link marine ecosystem research with the social and behavioral sciences in new and vital ways.

To guide program priorities, a Science Steering Committee was formed through Dr. Linda Deegan and the initial Scientific Planning Office at the Marine Biological Laboratory in Woods Hole, MA. This Committee was designed to provide scientific advice and broad direction to NOAA and NSF regarding the CAMEO program.

 



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Funding

Funding SourceAward
NSF Division of Ocean Sciences (NSF OCE)

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