LIM: Linear Inverse Model examples and solution methods

Functions that read and solve linear inverse problems (food web problems, linear programming problems). These problems find solutions to linear or quadratic functions: min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi) subject to equality constraints Ex=f and inequality constraints Gx>=h. Uses package limSolve.

AuthorKarline Soetaert <karline.soetaert@nioz.nl>, Dick van Oevelen<dick.vanoevelen@nioz.nl>
Date of publication2015-10-06 06:33:55
MaintainerKarline Soetaert <karline.soetaert@nioz.nl>
LicenseGPL (>= 2)
Version1.4.7

View on R-Forge

Man pages

FILERigaAutumn: Input text "file" for gulf of Riga autumn planktonic food web

Flowmatrix: Generates a flow matrix for an inverse (foodweb) problem

Ldei: Solves a linear inverse model using least distance...

LIM: Linear Inverse Model examples and solution methods

LIMBlending: A blending problem specification

LIMBrouageMudflat: Linear inverse model specification for the Intertidal mudflat...

LIMCaliforniaSediment: Linear inverse model specification for the Santa Monica Basin...

LIMCoralRockall: Linear inverse model specification for the Deep-water Coral...

LIMEcoli: The Escherichia Coli Core Metabolism: Reaction network model...

LIMEverglades: Linear inverse model specification for the herpetological...

LIMRigaAutumn: Linear inverse model specification for the Gulf of Riga...

LIMRigaSpring: Linear inverse model specification for the Gulf of Riga...

LIMRigaSummer: Linear inverse model specification for the Gulf of Riga...

LIMScheldtIntertidal: Linear inverse model specification for the Schelde Intertidal...

LIMTakapoto: Linear inverse model specification for the Takapoto atoll...

Linp: Solves a linear inverse model using linear programming.

Lsei: Solves a linear inverse model using the least squares method.

plotranges: Plots the minimum and maximum and central values

PrintMat: Writes linear inverse matrices to the screen

Read: Reads an inverse input file

Setup: Creates linear inverse matrices

Variables: Generates the values of variables for a linear inverse...

Varranges: Generates ranges of the variables for a linear inverse...

Xranges: Generates ranges of the unknowns of a linear inverse problem

Xsample: Generates a random sample of the unknowns for a linear...

Functions

FILERigaAutumn Man page
Flowmatrix Man page
Ldei Man page
Ldei.character Man page
Ldei.double Man page
Ldei.lim Man page
Ldei.limfile Man page
LIM Man page
LIMBlending Man page
LIMBrouageMudflat Man page
LIMCaliforniaSediment Man page
LIMCoralRockall Man page
LIMEcoli Man page
LIMEverglades Man page
LIMinputBlending Man page
LIM-package Man page
LIMRigaAutumn Man page
LIMRigaSpring Man page
LIMRigaSummer Man page
LIMScheldtIntertidal Man page
LIMTakapoto Man page
Linp Man page
Linp.character Man page
Linp.double Man page
Linp.lim Man page
Linp.limfile Man page
Lsei Man page
Lsei.character Man page
Lsei.double Man page
Lsei.lim Man page
Lsei.limfile Man page
Plotranges Man page
Plotranges.character Man page
Plotranges.double Man page
Plotranges.lim Man page
PrintMat Man page
Read Man page
Setup Man page
Setup.character Man page
Setup.limfile Man page
Setup.liminput Man page
Variables Man page
Varranges Man page
Xranges Man page
Xsample Man page

Files

DESCRIPTION
NAMESPACE
R
R/Flowmatrix.R R/LIM.r R/Ldei.R R/Linp.R R/Lsei.R R/Plotranges.R R/Variables.R R/Varranges.R R/Xranges.R R/Xsample.R R/read.limfile.r
build
build/vignette.rds
data
data/FILERigaAutumn.rda
data/LIMBlending.rda
data/LIMBrouageMudflat.rda
data/LIMCaliforniaSediment.rda
data/LIMCoralRockall.rda
data/LIMEcoli.rda
data/LIMEverglades.rda
data/LIMRigaAutumn.rda
data/LIMRigaSpring.rda
data/LIMRigaSummer.rda
data/LIMScheldtIntertidal.rda
data/LIMTakapoto.rda
data/LIMinputBlending.rda
demo
demo/00Index
demo/LIMexamples.r
inst
inst/CITATION
inst/doc
inst/doc/LIM.Rnw
inst/doc/LIM.pdf
inst/doc/LIMecoli.R
inst/doc/LIMecoli.Rnw
inst/doc/LIMecoli.pdf
inst/doc/examples
inst/doc/examples/Foodweb
inst/doc/examples/Foodweb/BrouageMudflat.input
inst/doc/examples/Foodweb/CWC_Rockall.input
inst/doc/examples/Foodweb/CaliforniaSediment.input
inst/doc/examples/Foodweb/Coral
inst/doc/examples/Foodweb/Coral/CWC_Rockall_LO_scripts.R
inst/doc/examples/Foodweb/Coral/MCR.Rdata
inst/doc/examples/Foodweb/Everglades.input
inst/doc/examples/Foodweb/ExampleLIM_Underdetermined.input
inst/doc/examples/Foodweb/Hausgarten_LIMpackage.input
inst/doc/examples/Foodweb/LIM_Example.input
inst/doc/examples/Foodweb/RigaAutumn.input
inst/doc/examples/Foodweb/RigaSpring.input
inst/doc/examples/Foodweb/RigaSummer.input
inst/doc/examples/Foodweb/ScheldtIntertidal.input
inst/doc/examples/Foodweb/Takapoto.input
inst/doc/examples/Foodweb/foodweb.lim
inst/doc/examples/Foodweb/foodwebs.R
inst/doc/examples/Foodweb/simple.input
inst/doc/examples/LinearProg
inst/doc/examples/LinearProg/FoodManufacture.001
inst/doc/examples/LinearProg/Greenberg1.input
inst/doc/examples/LinearProg/Machines.input
inst/doc/examples/LinearProg/Refinery.001
inst/doc/examples/LinearProg/Simple.Input
inst/doc/examples/LinearProg/Vanderbei1.Input
inst/doc/examples/LinearProg/Vanderbei2.Input
inst/doc/examples/LinearProg/Vanderbei3.Input
inst/doc/examples/LinearProg/Vanderbei4.Input
inst/doc/examples/LinearProg/Vanderbei5.Input
inst/doc/examples/LinearProg/alloymixture.input
inst/doc/examples/LinearProg/blending.input
inst/doc/examples/LinearProg/diet.input
inst/doc/examples/LinearProg/linprog.lim
inst/doc/examples/LinearProg/linprogs.R
inst/doc/examples/LinearProg/manpower.001
inst/doc/examples/LinearProg/transportation.input
inst/doc/examples/Reactions
inst/doc/examples/Reactions/E_coli.lim
inst/doc/examples/Reactions/Hypothetical.lim
inst/doc/examples/Reactions/fba_simple.lim
inst/doc/examples/Reactions/reaction.lim
man
man/FILERigaAutumn.Rd man/Flowmatrix.Rd man/LIM.Rd man/LIMBlending.Rd man/LIMBrouageMudflat.Rd man/LIMCaliforniaSediment.Rd man/LIMCoralRockall.Rd man/LIMEcoli.Rd man/LIMEverglades.Rd man/LIMRigaAutumn.Rd man/LIMRigaSpring.Rd man/LIMRigaSummer.Rd man/LIMScheldtIntertidal.Rd man/LIMTakapoto.Rd man/Ldei.Rd man/Linp.Rd man/Lsei.Rd man/PrintMat.Rd man/Read.Rd man/Setup.Rd man/Variables.Rd man/Varranges.Rd man/Xranges.Rd man/Xsample.Rd man/plotranges.Rd
vignettes
vignettes/FigGeneral.pdf
vignettes/FigReaction.pdf
vignettes/FigWeb.pdf
vignettes/Figblending.pdf
vignettes/LIM.Rnw
vignettes/LIMecoli.Rnw
vignettes/vignettes.bib

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