
Package index
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create.rpath.params()
- Creates a shell for the Rpath.params object
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check.rpath.params()
- Check Rpath parameter files
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read.rpath.params()
- Read Rpath parameters from .csv files
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rpath()
- Ecopath module of Rpath
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rpath.stanzas()
- Calculate biomass and consumption for multistanza groups
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rpath.consumers()
- List of Rpath consumer groups
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rpath.detrital()
- List of Rpath detrital groups
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rpath.gears()
- List of Rpath gears groups
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rpath.groups()
- Rpath functional group names
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rpath.living()
- List of Rpath living groups
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rpath.mixotrophs()
- List of Rpath mixotroph groups
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rpath.producers()
- List of Rpath producer groups
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rsim.scenario()
- Specify a dynamic simulation scenario
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rsim.run()
- Run a dynamic simulation
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rsim.step()
- Function to add a time step to an Rsim run
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rsim.params()
- Initial set up for Rsim dynamic simulation
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rsim.fishing()
- Initialize fishing matrix for Rsim scenario
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rsim.forcing()
- Initialize forcing matrix for Rsim scenario
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rsim.deriv()
- Calculate the derivatives for a time step
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rsim.diet()
- Output consumption of each prey by an individual predator group from Rsim run
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rsim.mort()
- Output biomass removed by each predator for an individual prey group from Rsim run
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rsim.stanzas()
- Initialize list of age structured group (stanza) parameters for dynamic simulation
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rsim.state()
- Initialize starting state matrix for Rsim scenario
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rsim.sense()
- Ecosense function for Rpath
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get.rsim.fishing()
- Retrieve fishing forcing parameters from an Rsim scenario
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get.rsim.forcing()
- Retrieve forcing parameters from an Rsim scenario
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get.rsim.params()
- Retrieve parameters from an Rsim scenario
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get.rsim.stanzas()
- Retrieve stanza parameters from an Rsim scenario
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get.rsim.start_state()
- Retrieve starting state values from an Rsim scenario
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set.rsim.scene()
- Set Rsim.scenario parameters
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Ecosense.EBS
- Eastern Bering Sea 1990s Ecopath model
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Ecosense.ECS
- Eastern Chukchi Sea Ecopath model
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Ecosense.GOA
- Gulf of Alaska (west/central) 1990s Ecopath model
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AB.params
- AB.params
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REco.params
- REco.params
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adjust.scenario()
- Adjust Rsim.scenario parameters
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adjust.fishing()
- Adjust Fishing Mortality
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adjust.forcing()
- Adjust Forcing Parameters
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webplot()
- Plot routine for Ecopath food web
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ggwebplot()
- ggplot routine for Rpath food web
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rsim.plot()
- Plot routine for Rsim runs
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stanzaplot()
- Plot routine for Ecopath multistanzas
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summarize.for.webplot()
- Prepare food web model to plot
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write.rpath.params()
- Write Rpath parameters to .csv files
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write.Rpath()
- Write function for Rpath food web object
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write.Rsim()
- Write function for Rsim run
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frate.table()
- Fishing Mortality Table
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extract.node()
- Extract node/group data from an Rsim run
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Rpath-package
- Rpath: A package implementing mass balance algorithms designed to work with fisheries data sources.
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MTI()
- Quantify mixed trophic impacts