Soil Food Web Analysis

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Documentation for package ‘soilfoodwebs’ version 1.0.2

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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