{ "_id": "6ab8f85899f7aa8c6aa3918c", "Package": "FME", "Version": "1.3.6.3", "Title": "A Flexible Modelling Environment for Inverse Modelling,\nSensitivity, Identifiability and Monte Carlo Analysis", "Authors@R": "c(person(\"Karline\",\"Soetaert\", role = c(\"aut\", \"cre\"), \nemail = \"karline.soetaert@nioz.nl\",\ncomment = c(ORCID = \"0000-0003-4603-7100\")),\nperson(\"Thomas\",\"Petzoldt\", role = c(\"aut\"),\nemail = \"thomas.petzoldt@tu-dresden.de\",\ncomment = c(ORCID = \"0000-0002-4951-6468\")))", "Author": "Karline Soetaert [aut, cre]\n(), Thomas Petzoldt\n[aut] ()", "Maintainer": "Karline Soetaert ", "Description": "Provides functions to help in fitting models to data, to\nperform Monte Carlo, sensitivity and identifiability analysis.\nIt is intended to work with models be written as a set of\ndifferential equations that are solved either by an integration\nroutine from package 'deSolve', or a steady-state solver from\npackage 'rootSolve'. However, the methods can also be used with\nother types of functions.", "License": "GPL (>= 2)", "URL": "http://fme.r-forge.r-project.org/", "Repository": "https://r-forge.r-universe.dev", "Date/Publication": "2023-07-01 16:12:50 UTC", "RemoteUrl": "https://github.com/r-forge/fme", "RemoteRef": "HEAD", "RemoteSha": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "RemoteSubdir": "pkg/FME", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-09-27 11:00:12 UTC", "User": "root" }, "_user": "r-forge", "_type": "src", "_file": "FME_1.3.6.3.tar.gz", "_fileid": "https://r2.ropensci.org/8bffa136af2dce1b4ca46ad389ecc0224309ae498c34c4c80ec4ee144f02a7e7", "_filesize": 5361455, "_sha256": "8bffa136af2dce1b4ca46ad389ecc0224309ae498c34c4c80ec4ee144f02a7e7", "_expires": "2027-01-05T11:04:54.000Z", "_created": "2026-09-27T11:00:12.000Z", "_published": "2026-09-27T11:04:56.767Z", "_jobs": [ { "job": 108606095616, "time": 126, "config": "linux-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "10930490641" }, { "job": 108606095685, "time": 150, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "10929719134" }, { "job": 108606095618, "time": 121, "config": "linux-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "10930226082" }, { "job": 108606095647, "time": 146, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "10929739047" }, { "job": 108606095610, "time": 106, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "10929768814" }, { "job": 108606095656, "time": 199, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "10930670487" }, { "job": 108606095576, "time": 91, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "10929982539" }, { "job": 108606095594, "time": 172, "config": "macos-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "10929778703" }, { "job": 108605570796, "time": 216, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "10930470609" }, { "job": 108606095564, "time": 98, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "10930430792" }, { "job": 108606095631, "time": 238, "config": "windows-devel-arm64", "r": "4.7.0", "check": "NOTE", "artifact": "10929972702" }, { "job": 108606095613, "time": 103, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "10930206871" }, { "job": 108606095670, "time": 91, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "10929699088" }, { "job": 108606095623, "time": 215, "config": "windows-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "10930506534" }, { "job": 108606095676, "time": 96, "config": "windows-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "10930660321" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191", "_status": "success", "_upstream": "https://github.com/r-forge/fme", "_commit": { "id": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "author": "petzoldt (Dr ) ", "committer": "petzoldt (Dr ) ", "message": "fix issues in pseudoOptim.Rd and update CITATION file to pass the package check.\n\ngit-svn-id: svn://svn.r-forge.r-project.org/svnroot/fme@178 edb9625f-4e0d-4859-8d74-9fd3b1da38cb\n", "time": 1688227970 }, "_maintainer": { "name": "Karline Soetaert", "email": "karline.soetaert@nioz.nl", "login": "karlines", "description": "", "uuid": 8592137, "orcid": "0000-0003-4603-7100" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.6", "role": "Depends" }, { "package": "deSolve", "role": "Depends" }, { "package": "rootSolve", "role": "Depends" }, { "package": "coda", "role": "Depends" }, { "package": "minpack.lm", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "minqa", "role": "Imports" }, { "package": "diagram", "role": "Suggests" } ], "_owner": "r-forge", "_selfowned": true, "_usedby": 8, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "tpetzoldt", "count": 89, "uuid": 9091294 }, { "user": "karlines", "count": 81, "uuid": 8592137 }, { "user": "tomvanengeland", "count": 7, "uuid": 5237053 }, { "user": "theussl", "count": 1, "uuid": 22165873 } ], "_userbio": { "uuid": 75573726, "type": "organization", "name": " R-Forge", "followers": 27, "description": "git-svn mirrors from R-Forge" }, "_downloads": { "count": 3872, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/FME" }, "_mentions": 43, "_devurl": "https://github.com/r-forge/fme", "_searchresults": 420, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/FME.html", "extra/manual.pdf" ], "_homeurl": "https://github.com/r-forge/fme", "_realowner": "r-forge", "_cranurl": true, "_releases": [ { "version": "1.0", "date": "2009-09-18" }, { "version": "1.1", "date": "2010-02-01" }, { "version": "1.1.1", "date": "2011-03-26" }, { "version": "1.3", "date": "2012-03-24" }, { "version": "1.3.1", "date": "2014-01-13" }, { "version": "1.3.2", "date": "2014-11-03" }, { "version": "1.3.5", "date": "2016-09-09" }, { "version": "1.3.6.1", "date": "2019-12-18" }, { "version": "1.3.6.2", "date": "2021-10-12" }, { "version": "1.3.6.3", "date": "2023-07-05" }, { "version": "1.3.6.4", "date": "2025-07-25" } ], "_exports": [ "collin", "cross2long", "gaussianWeights", "Grid", "Latinhyper", "modCost", "modCRL", "modFit", "modMCMC", "Norm", "obsplot", "pseudoOptim", "sensFun", "sensRange", "Unif" ], "_help": [ { "page": "FME", "title": "A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability, Monte Carlo Analysis.", "topics": [ "FME-package", "FME" ] }, { "page": "collin", "title": "Estimates the Collinearity of Parameter Sets", "topics": [ "collin", "plot.collin", "print.collin" ] }, { "page": "cross2long", "title": "Convert a dataset in wide (crosstab) format to long (database) format", "topics": [ "cross2long" ] }, { "page": "gaussianWeights", "title": "A kernel average smoother function to weigh residuals according to a Gaussian density function This function is still experimental... use with care", "topics": [ "gaussianWeights" ] }, { "page": "Grid", "title": "Grid Distribution", "topics": [ "Grid" ] }, { "page": "Latinhyper", "title": "Latin Hypercube Sampling", "topics": [ "Latinhyper" ] }, { "page": "modCost", "title": "Calculates the Discrepancy of a Model Solution with Observations", "topics": [ "modCost" ] }, { "page": "modCRL", "title": "Monte Carlo Analysis", "topics": [ "hist.modCRL", "modCRL", "pairs.modCRL", "plot.modCRL", "summary.modCRL" ] }, { "page": "modFit", "title": "Constrained Fitting of a Model to Data", "topics": [ "coef.modFit", "deviance.modFit", "df.residual.modFit", "modFit", "plot.modFit", "print.summary.modFit", "residuals.modFit", "summary.modFit" ] }, { "page": "modMCMC", "title": "Constrained Markov Chain Monte Carlo", "topics": [ "hist.modMCMC", "modMCMC", "pairs.modMCMC", "plot.modMCMC", "summary.modMCMC" ] }, { "page": "Norm", "title": "Normal Random Distribution", "topics": [ "Norm" ] }, { "page": "obsplot", "title": "Plot Method for observed data", "topics": [ "obsplot" ] }, { "page": "pseudoOptim", "title": "Pseudo-random Search Optimisation Algorithm of Price (1977)", "topics": [ "pseudoOptim" ] }, { "page": "sensFun", "title": "Local Sensitivity Analysis", "topics": [ "pairs.sensFun", "plot.sensFun", "plot.summary.sensFun", "sensFun", "summary.sensFun" ] }, { "page": "sensRange", "title": "Sensitivity Ranges of a Timeseries or 1-D Variables", "topics": [ "plot.sensRange", "plot.summary.sensRange", "sensRange", "summary.sensRange" ] }, { "page": "Unif", "title": "Uniform Random Distribution", "topics": [ "Unif" ] } ], "_rundeps": [ "coda", "deSolve", "lattice", "MASS", "minpack.lm", "minqa", "Rcpp", "rootSolve" ], "_vignettes": [ { "source": "FME.Rnw", "filename": "FME.pdf", "title": "Inverse Modelling, Sensitivity and Monte Carlo Analysis in R Using Package FME ", "engine": "utils::Sweave", "headings": [ "Introduction", "The test model", "Local sensitivity analysis", "Multivariate parameter identifiability", "Fitting the model to data", "MCMC", "Model prediction", "Monte Carlo applications", "Discussion", "The Fortran version of the model" ], "created": "2014-01-07 07:19:46", "modified": "2014-01-07 07:19:46", "commits": 1 }, { "source": "FMEdyna.Rnw", "filename": "FMEdyna.pdf", "title": "Sensitivity, Calibration, Identifiability, Monte Carlo Analysis of a Dynamic Simulation Model ", "engine": "utils::Sweave", "headings": [ "Introduction", "The example model", "Global sensitivity", "Local sensitivity", "Multivariate sensitivity analysis", "Fitting the model to data", "Markov chain Monte Carlo", "Distributions", "Examples", "Finally" ], "created": "2014-01-07 07:19:46", "modified": "2014-01-07 07:19:46", "commits": 1 }, { "source": "FMEmcmc.Rnw", "filename": "FMEmcmc.pdf", "title": "Tests of the Markov Chain Monte Carlo Implementation ", "engine": "utils::Sweave", "headings": [ "Introduction", "Function modMCMC", "Sampling from a normal distribution", "Sampling from a lognormal distribution", "The banana", "A simple chemical model", "Fitting a nonlinear model", "Finally" ], "created": "2014-01-07 07:19:46", "modified": "2014-01-07 07:19:46", "commits": 1 }, { "source": "FMEother.Rnw", "filename": "FMEother.pdf", "title": "Sensitivity, Calibration, Identifiability, Monte Carlo Analysis of a Nonlinear Model ", "engine": "utils::Sweave", "headings": [ "Fitting a Monod function", "Finally" ], "created": "2014-01-07 07:19:46", "modified": "2014-01-07 07:19:46", "commits": 1 }, { "source": "FMEsteady.Rnw", "filename": "FMEsteady.pdf", "title": "Sensitivity, Calibration, Identifiability, Monte Carlo Analysis of a Steady-State Model ", "engine": "utils::Sweave", "headings": [ "A steady-state model of oxygen in a marine sediment", "Global sensitivity analysis : Sensitivity ranges", "Local sensitivity analysis : Sensitivity functions", "Fitting the model to the data", "Running a Markov chain Monte Carlo", "Finally" ], "created": "2014-01-07 07:19:46", "modified": "2014-10-29 00:31:50", "commits": 2 } ], "_score": 8.767487139801544, "_indexed": true, "_nocasepkg": "fme", "_universes": [ "r-forge", "karlines" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.3.6.3", "date": "2026-09-27T11:02:18.000Z", "distro": "resolute", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/835125ff2b9676e057545c3474692cca9cc9149409392f825dc747fe3fae4a98", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.7.0", "os": "linux", "version": "1.3.6.3", "date": "2026-09-27T11:02:43.000Z", "distro": "resolute", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/8c74c5afcf5672febe86e02b57cb1dd34b1d9eb5c6c9c267286ab6eeacff6d2f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "linux", "version": "1.3.6.3", "date": "2026-09-27T11:02:15.000Z", "distro": "resolute", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/3c8e902fd23c5a4eddaf80af0695f0a3189b1d9096a06bb092c3fe15ef74b497", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "linux", "version": "1.3.6.3", "date": "2026-09-27T11:02:32.000Z", "distro": "resolute", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/eb419d11d47a63024a8199644b24677ca66e362adddbf211b2132d48595a43df", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.5.3", "os": "mac", "version": "1.3.6.3", "date": "2026-09-27T11:01:55.000Z", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/d02eb184c13331d3797f7a62323ffc3f4ff4df5e6cc38088fbb76050887373ca", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.5.3", "os": "mac", "version": "1.3.6.3", "date": "2026-09-27T11:03:07.000Z", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/daed48218a5ff929acbe09bcf7b4f42f3cf70c82aab8551eae1073b85b5c48ac", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "mac", "version": "1.3.6.3", "date": "2026-09-27T11:01:39.000Z", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/6700e28d2d13a875aa05221094bb32fba413e04c2450e6cd07c56a374e2d6752", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "mac", "version": "1.3.6.3", "date": "2026-09-27T11:02:37.000Z", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/46016f53c92c4d6f230a291fc0f2cdecc003f59666ef2e5b169a9b406b3c2b23", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.0", "os": "wasm", "version": "1.3.6.3", "date": "2026-09-27T11:02:09.000Z", "arch": "emscripten", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/a62711c814df97ee75aae0dfc5c874dfb89ab5f74da3a7e296e2fc19155e54df", "status": "success", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.7.0", "os": "win", "version": "1.3.6.3", "date": "2026-09-27T11:03:53.000Z", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/f5b7ccdf3579bb416fc0d2b34c801485c4cd0ec01cd23c7714861cfa3e04272f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.7.0", "os": "win", "version": "1.3.6.3", "date": "2026-09-27T11:01:12.000Z", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/54d2abee1b7caa1da39f79c6757f217dcc79a17f483df506b706da2299ce14a8", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.5.3", "os": "win", "version": "1.3.6.3", "date": "2026-09-27T11:01:21.000Z", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/4b9dc8595a464564328bae732f016a3ff3ca79bd70b8fcfe54ef6d931208d9be", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "win", "version": "1.3.6.3", "date": "2026-09-27T11:03:32.000Z", "arch": "aarch64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/cc17818e2b57c32a68b352e6dc2a5072e0655a64d019f7955d7e933a1e4de68b", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" }, { "r": "4.6.1", "os": "win", "version": "1.3.6.3", "date": "2026-09-27T11:01:24.000Z", "arch": "x86_64", "commit": "1e07880fc1b485165f2b73ba34b42381f05cab1e", "fileid": "https://r2.ropensci.org/5ed496412b043db1ccc46e73fb867b74a84097f9e521dfba89dbdc4abb861aa8", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/r-forge/actions/runs/36314142191" } ] }