FME: A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability and Monte Carlo Analysis
Version 1.3.5

Provides functions to help in fitting models to data, to perform Monte Carlo, sensitivity and identifiability analysis. It is intended to work with models be written as a set of differential equations that are solved either by an integration routine from package 'deSolve', or a steady-state solver from package 'rootSolve'. However, the methods can also be used with other types of functions.

Browse man pages Browse package API and functions Browse package files

AuthorKarline Soetaert <karline.soetaert@nioz.nl>, Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>
Date of publication2016-09-09 10:13:37
MaintainerKarline Soetaert <karline.soetaert@nioz.nl>
LicenseGPL (>= 2)
Version1.3.5
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("FME")

Man pages

collin: Estimates the Collinearity of Parameter Sets
cross2long: Convert a dataset in wide (crosstab) format to long...
FME: A Flexible Modelling Environment for Inverse Modelling,...
gaussianWeights: A kernel average smoother function to weigh residuals...
Grid: Grid Distribution
Latinhyper: Latin Hypercube Sampling
modCost: Calculates the Discrepancy of a Model Solution with...
modCRL: Monte Carlo Analysis
modFit: Constrained Fitting of a Model to Data
modMCMC: Constrained Markov Chain Monte Carlo
Norm: Normal Random Distribution
obsplot: Plot Method for observed data
pseudoOptim: Pseudo-random Search Optimisation Algorithm of Price (1977)
sensFun: Local Sensitivity Analysis
sensRange: Sensitivity Ranges of a Timeseries or 1-D Variables
Unif: Uniform Random Distribution

Functions

Accept Source code
FME Man page
FME-package Man page
Grid Man page Source code
Latinhyper Man page Source code
Norm Man page Source code
Range Source code Source code
Test Source code
Unif Man page Source code
coef.modFit Man page Source code
collFun Source code
collFun_OLD Source code
collin Man page Source code
combin Source code
convert2wide Source code
cross2long Man page Source code
cumuplot.modMCMC Source code
deviance.modFit Man page Source code
df.residual.modFit Man page Source code
expanddots Source code Source code
expanddotslist Source code Source code
extractdots Source code Source code
findvar Source code
gaussianWeights Man page Source code
hist.modCRL Man page Source code
hist.modMCMC Man page Source code
logP_type1 Source code
logP_type2 Source code
logP_type2b Source code
logP_type3 Source code
logP_type4 Source code
logP_type5 Source code
mergeObs Source code
modCRL Man page Source code
modCost Man page Source code
modFit Man page Source code
modMCMC Man page Source code
obsplot Man page Source code
overrule Source code
pairs.modCRL Man page Source code
pairs.modMCMC Man page Source code
pairs.sensFun Man page Source code
panel.cor Source code
panel.hist Source code
plot.collin Man page Source code
plot.modCRL Man page Source code
plot.modCost Source code
plot.modFit Man page Source code
plot.modMCMC Man page Source code
plot.sensFun Man page Source code
plot.sensRange Man page Source code
plot.summary.sensFun Man page Source code
plot.summary.sensRange Man page Source code
print.collin Man page Source code
print.summary.modFit Man page Source code
print.summary.sensFun Source code
pseudoOptim Man page Source code
renameListElement Source code
repdots Source code Source code
residuals.modFit Man page Source code
selectvar Source code
sensFun Man page Source code
sensRange Man page Source code
setdots Source code Source code
setplotpar Source code
summary.modCRL Man page Source code
summary.modFit Man page Source code
summary.modMCMC Man page Source code
summary.sensFun Man page Source code
summary.sensRange Man page Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/FMEsteady.R
inst/doc/examples
inst/doc/examples/ABrun.R
inst/doc/examples/Omexdia_FME.R
inst/doc/examples/banana.R
inst/doc/examples/O2profile_FME.R
inst/doc/examples/Logist.R
inst/doc/examples/bact_FME.R
inst/doc/examples/BODO2_FME.R
inst/doc/examples/ccl4rmodel_FME.R
inst/doc/examples/modFit_with_simecol.R
inst/doc/examples/Monod.R
inst/doc/FMEmcmc.pdf
inst/doc/FMEother.pdf
inst/doc/FMEmcmc.R
inst/doc/FMEother.Rnw
inst/doc/FMEsteady.pdf
inst/doc/FMEmcmc.Rnw
inst/doc/FME.Rnw
inst/doc/FMEdyna.R
inst/doc/FMEother.R
inst/doc/FME.pdf
inst/doc/FMEsteady.Rnw
inst/doc/FME.R
inst/doc/FMEdyna.pdf
inst/doc/FMEdyna.Rnw
src
src/mod.f
NAMESPACE
R
R/cross2long.R
R/modCost.R
R/Norm.R
R/gaussianWeights.R
R/ultilities.R
R/collin.R
R/Latinhyper.R
R/Grid.R
R/pseudoOptim.R
R/sensRange.R
R/modMCMC.R
R/modCRL.R
R/sensFun.R
R/obsplot.R
R/Unif.R
R/modFit.R
vignettes
vignettes/FMEother.Rnw
vignettes/FMEmcmc.Rnw
vignettes/FME.Rnw
vignettes/FME-HIV.pdf
vignettes/FMEsteady.Rnw
vignettes/mcmc.Rdata
vignettes/vignettes.bib
vignettes/FMEdyna.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/collin.Rd
man/pseudoOptim.Rd
man/modFit.Rd
man/gaussianWeights.Rd
man/Latinhyper.Rd
man/Unif.Rd
man/FME.Rd
man/modMCMC.Rd
man/sensFun.Rd
man/modCost.Rd
man/obsplot.Rd
man/Norm.Rd
man/cross2long.Rd
man/modCRL.Rd
man/sensRange.Rd
man/Grid.Rd
.Rinstignore
FME documentation built on May 20, 2017, 4:44 a.m.