R: Soil Food Web Analysis

# Soil Food Web Analysis

## Documentation for package ‘soilfoodwebs’ version 1.0.2

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package README

## Help Pages

Aijfcn | A function to calculate the nitrogen surplus or deficit each species gets from consuming another species
Andres2016 | The soil food webs published for grazed and ungrazed plots in the Shortgrass Steppe long-term research station.
build_foodweb | A function to compile the food web from simple data inputs
calculate_inputs | A function to calculate the inputs and outputs at equilibrium and print them for the user.
calculate_smin | Function used inside the calc_smin function
calc_smin | Calculate the strength of stability as smin.
can_mutfeed | A function that identifies cannibalism and mutual feeding
checkcomm | A function check the community for errors before it is used in calculations.
checkeqm | Check the carbon flux equilibrium output by comana.
Cijfcn | A utility function to calculate the consumption rate of each species on all prey assuming a type I functional response.
CNsim | A function to simulate the dynamics over time wrapping getPARAMS and foodwebode
comana | A function to calculate carbon and nitrogen fluxes in the food web.
comtrosp | A function to combine trophic species.
correction_function | A function to correct stoichiometry dynamically
correct_diet | A function to correct the diet of trophic species.
corrstoich | Correct stoichiometry
decompexpt | Decomposition rates and effect of individual organisms
deRuiter1994 | The soil food webs published for conventional (CON) and integrated (INT) management at Lovinkhoeve experimental farm.
foodwebode | A function to simulation the food webs away from equilibrium.
getPARAMS | A function to get the parameters for a food web model.
Holtkamp2011 | The soil food webs published along a chronosequence in the Netherlands.
Hunt1987 | The soil food web published for CPER
intro_comm | A baseline community for examples
Jacobsindex | Calculate Jacob's index.
Koltz2018 | The soil food web published for an Arctic Tundra site
newnode | Add node to the community
parameter_uncertainty | Parameter uncertainty returns community with new parameters drawn from a distribution of choice
productionadj | A function to fix production efficiency.
removenodes | Remove nodes from community.
renamenode | Rename a node in a community.
RESCALE | A function to rescale a vector.
stability | Calculates the stability of the food web
stability2 | A function to run the stability analysis using the numerical simulation of the Jacobain matrix.
TLcheddar | Calculates the trophic level for each tropospecies
TLsort | Sorts the trophic levels from lowest to highest
whomineralizes | Direct and indirect contributions to mineralizations