Linear inverse model specification for the Takapoto atoll planktonic food web.

Description

Linear inverse model specification for the Carbon flux model of the Takapoto atoll planktonic food web

as reconstructed by inverse modelling by Niquil et al. (1998).

The Takapoto Atoll lagoon is located in the French Polynesia of the South Pacific

The food web comprises 7 functional compartments and three external compartments/sinks connected with 32 flows.

Units of the flows are mg C/m2/day

The linear inverse model LIMTakapoto is generated from the file Takapoto.input which can be found in subdirectory /examples/FoodWeb of the package directory

In this subdirectory you will find many foodweb example input files

These files can be read using Read and their output processed by Setup which will produce a linear inverse problem specification similar to LIMTakapoto

Usage

data(LIMTakapoto)

Format

a list of matrices, vectors, names and values that specify the linear inverse model problem.

see the return value of Setup for more information about this list

A more complete description of this structures is in vignette("LIM")

Author(s)

Karline Soetaert <karline.soetaert@nioz.nl> Dick van Oevelen<dick.vanoevelen@nioz.nl>

References

Niquil, N., Jackson, G.A., Legendre, L., Delesalle, B., 1998. Inverse model analysis of the planktonic food web of Takapoto Atoll (French Polynesia). Marine Ecology Progress Series 165, 17..29.

See Also

browseURL(paste(system.file(package="LIM"), "/doc/examples/Foodweb/", sep=""))

contains "Takapoto.input", the input file; read this with Setup

LIMRigaAutumn and many others

Examples

Takapoto <- Flowmatrix(LIMTakapoto)
plotweb(Takapoto, main="Takapoto atoll planktonic food web",
        sub = "mgC/m2/day", lab.size = 1)
# some ranges extend to infinity - they are marked with "*"
Plotranges(LIMTakapoto, lab.cex = 0.7, 
        sub = "*=unbounded", xlab = "mgC/m2/d",
        main = "Takapoto atoll planktonic food web, Flowranges")
# ranges of variables, exclude first
Plotranges(LIMTakapoto, type = "V", lab.cex = 0.7, 
        index = 2:23, xlab = "mgC/m2/d",
        main = "Takapoto atoll planktonic food web, Variable ranges")

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(LIM)
Loading required package: limSolve
Loading required package: diagram
Loading required package: shape
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/LIM/LIMTakapoto.Rd_%03d_medium.png", width=480, height=480)
> ### Name: LIMTakapoto
> ### Title: Linear inverse model specification for the Takapoto atoll
> ###   planktonic food web.
> ### Aliases: LIMTakapoto
> ### Keywords: datasets
> 
> ### ** Examples
> Takapoto <- Flowmatrix(LIMTakapoto)
> plotweb(Takapoto, main="Takapoto atoll planktonic food web",
+         sub = "mgC/m2/day", lab.size = 1)
> # some ranges extend to infinity - they are marked with "*"
> Plotranges(LIMTakapoto, lab.cex = 0.7, 
+         sub = "*=unbounded", xlab = "mgC/m2/d",
+         main = "Takapoto atoll planktonic food web, Flowranges")
> # ranges of variables, exclude first
> Plotranges(LIMTakapoto, type = "V", lab.cex = 0.7, 
+         index = 2:23, xlab = "mgC/m2/d",
+         main = "Takapoto atoll planktonic food web, Variable ranges")
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>