PathInd {NetIndices} | R Documentation |
Calculates the direct and indirect pathways in a network, i.e. the total system cycled throughflow, Finn's cycling index and average pathlength,...
Base on Finn(1980) (and not Finn (1976))
PathInd(Flow=NULL, Tij=t(Flow), Import=NULL, Export=NULL)
Flow |
Network matrix with Flow[i,j] the flow from i (row) to j (column); component positions in rows and columns must be the same; if present, rownames or columnnames denote the compartment names |
Tij |
Network matrix where connectance is from column j to row i; component positions in rows and columns must be the same ; if present, rownames or columnnames denote the compartment names |
Import |
Vector with either the *indices* or the *names* of external compartmens from where flow enters the network; the indices point to the column positions in Tij (and the row positions in Flow) |
Export |
Vector with either the *indices* or the *names* of external compartmens to where flow leaves the network; the indices point to the row positions in Tij (and the column positions in Flow) |
The mathematical formulation of these indices can be found in the package vignette - vignette("NetIndices").
The PDF can be found in the subdirectory ‘doc’ of the NetIndices package
A list with the following items:
TSTC |
Total system cycled throughflow |
TSTS |
Non-cycled throughflow |
FCI |
Finn's cycling index (1980) |
APL |
Average pathlength, also known as Network Aggradation (Sum of APLc and APLs in Latham 2006) |
Karline Soetaert <k.soetaert@nioo.knaw.nl>, Julius Kipyegon Kones<jkones@uonbi.ac.ke>
Finn JT. 1980. Flow analysis of models of the Hubbard Brook ecosystem. Ecology 61: 562-571.
Patten BC, Higashi M. 1984. Modified cycling index for ecological applications. Ecological Modelling 25: 69-83.
Patten BC, Bosserman RW, Finn JT, Cale WG. 1976. Propagation of cause in ecosystems. Patten BC, editor. Systems Analysis and Simulation in Ecology, vol. 4. Academic Press, New York. p457-579.
# The takapoto atoll network PathInd(Takapoto,Import ="CO2", Export=c("CO2","Sedimentation","Grazing")) # Conesprings is the example set 1a from Latham 2006. as.data.frame(PathInd(Tij=Conesprings,Import="Inflows", Export=c("Export","Dissipation")))