{ "_id": "6aca7ed9fe5cc25786e8a41a", "Package": "pCODE", "Type": "Package", "Title": "Estimation of an Ordinary Differential Equation Model by\nParameter Cascade Method", "Version": "0.9.4", "Authors@R": "c(\nperson(\"Haixu\", \"Wang\", email = \"haixuw@sfu.ca\", role = c(\"aut\", \"cre\")),\nperson(\"Jiguo\", \"Cao\", email = \"jiguo_cao@sfu.ca\", role = \"aut\"))", "Description": "An implementation of the parameter cascade method Ramsay,\nJ. O., Hooker,G., Campbell, D., and Cao, J. (2007)\n for estimating ordinary\ndifferential equation models with missing or complete\nobservations. It combines smoothing method and profile\nestimation to estimate any non-linear dynamic system. The\npackage also offers variance estimates for parameters of\ninterest based on either bootstrap or Delta method.", "URL": "https://github.com/alex-haixuw/PCODE", "License": "GPL", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "RoxygenNote": "6.1.1", "Config/pak/sysreqs": "make", "Repository": "https://haixuw1.r-universe.dev", "Date/Publication": "2022-09-07 08:36:44 UTC", "RemoteUrl": "https://github.com/haixuw1/pcode", "RemoteRef": "HEAD", "RemoteSha": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-10 16:52:01 UTC", "User": "root" }, "Author": "Haixu Wang [aut, cre],\nJiguo Cao [aut]", "Maintainer": "Haixu Wang ", "_user": "haixuw1", "_type": "src", "_file": "pCODE_0.9.4.tar.gz", "_fileid": "https://r2.ropensci.org/1a18bc7bc5118b85867d79748db77271f626dc1968e17262ae48fb4d5c3849b7", "_filesize": 571610, "_sha256": "1a18bc7bc5118b85867d79748db77271f626dc1968e17262ae48fb4d5c3849b7", "_expires": "2027-01-18T18:07:19.000Z", "_created": "2026-10-10T16:52:01.000Z", "_published": "2026-10-10T18:07:21.311Z", "_buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257", "_status": "success", "_host": "GitHub-Actions", "_jobs": [ { "job": 114263597897, "time": 496, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11676660288" }, { "job": 114263597834, "time": 453, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11675824610" }, { "job": 114263597809, "time": 630, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "11677662988" }, { "job": 114263597784, "time": 584, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "11677857661" }, { "job": 114262831395, "time": 229, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11675569253" }, { "job": 114263597910, "time": 102, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11675888929" }, { "job": 114263597944, "time": 557, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11676337865" }, { "job": 114263597899, "time": 926, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "11676238422" }, { "job": 114263597913, "time": 728, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11676625818" } ], "_upstream": "https://github.com/haixuw1/pcode", "_commit": { "id": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "author": "Alex ", "committer": "Alex ", "message": "0.9.4 update\n\n", "time": 1662539804 }, "_maintainer": { "name": "Haixu Wang", "email": "haixuw@sfu.ca", "login": "haixuw1", "description": "", "uuid": 39653876 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "fda", "role": "Imports" }, { "package": "pracma", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "deSolve", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "Hmisc", "role": "Suggests" }, { "package": "testthat", "version": ">= 2.1.0", "role": "Suggests" } ], "_owner": "haixuw1", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 3, "_contributors": [ { "user": "haixuw1", "count": 69, "uuid": 39653876 }, { "user": "aleks11235", "count": 24, "uuid": 16651542 }, { "user": "alex-haixuw1", "count": 3, "uuid": 92626331 } ], "_userbio": { "uuid": 39653876, "type": "user", "name": "Haixu Wang", "followers": 2 }, "_downloads": { "count": 276, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pCODE" }, "_devurl": "https://github.com/alex-haixuw/pcode", "_searchresults": 7, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/pCODE.html", "extra/readme.html", "extra/readme.md" ], "_homeurl": "https://github.com/haixuw1/pcode", "_realowner": "haixuw1", "_cranurl": true, "_releases": [ { "version": "0.9.1", "date": "2019-07-23" }, { "version": "0.9.2", "date": "2019-08-03" }, { "version": "0.9.3", "date": "2019-11-23" }, { "version": "0.9.4", "date": "2022-09-08" } ], "_exports": [ "bootsvar", "deltavar", "pcode", "tunelambda" ], "_help": [ { "page": "bootsvar", "title": "Bootstrap variance estimator of structural parameters.", "topics": [ "bootsvar" ] }, { "page": "deltavar", "title": "Numeric estimation of variance of structural parameters by Delta method.", "topics": [ "deltavar" ] }, { "page": "innerobj", "title": "Inner objective function (Single dimension version)", "topics": [ "innerobj" ] }, { "page": "innerobj_lkh", "title": "Inner objective function (likelihood and multiple dimension version)", "topics": [ "innerobj_lkh" ] }, { "page": "innerobj_lkh_1d", "title": "Inner objective function (Likelihood and Single dimension version)", "topics": [ "innerobj_lkh_1d" ] }, { "page": "innerobj_multi", "title": "Inner objective function (multiple dimension version)", "topics": [ "innerobj_multi" ] }, { "page": "innerobj_multi_missing", "title": "Inner objective function (multiple dimension version with unobserved state variables)", "topics": [ "innerobj_multi_missing" ] }, { "page": "nls_optimize", "title": "Optimizer for non-linear least square problems", "topics": [ "nls_optimize" ] }, { "page": "nls_optimize.inner", "title": "Optimizer for non-linear least square problems (for inner objective functions)", "topics": [ "nls_optimize.inner" ] }, { "page": "outterobj", "title": "Outter objective function (Single dimension version)", "topics": [ "outterobj" ] }, { "page": "outterobj_lkh", "title": "Outter objective function (likelihood and multiple dimension version)", "topics": [ "outterobj_lkh" ] }, { "page": "outterobj_lkh_1d", "title": "Outter objective function (likelihood and single dimension version)", "topics": [ "outterobj_lkh_1d" ] }, { "page": "outterobj_multi_missing", "title": "Outter objective function (multiple dimension version with unobserved state variables)", "topics": [ "outterobj_multi_missing" ] }, { "page": "outterobj_multi_nls", "title": "Outter objective function (multiple dimension version)", "topics": [ "outterobj_multi_nls" ] }, { "page": "pcode", "title": "Parameter Cascade Method for Ordinary Differential Equation Models", "topics": [ "pcode" ] }, { "page": "pcode_1d", "title": "Parameter Cascade Method for Ordinary Differential Equation Models (Single dimension version)", "topics": [ "pcode_1d" ] }, { "page": "pcode_lkh", "title": "pcode_lkh (likelihood and multiple dimension version)", "topics": [ "pcode_lkh" ] }, { "page": "pcode_lkh_1d", "title": "Parameter Cascade Method for Ordinary Differential Equation Models (likelihood and Single dimension version)", "topics": [ "pcode_lkh_1d" ] }, { "page": "pcode_missing", "title": "Parameter Cascade Method for Ordinary Differential Equation Models with missing state variable", "topics": [ "pcode_missing" ] }, { "page": "prepare_basis", "title": "Evaluate basis objects over observation times and quadrature points", "topics": [ "prepare_basis" ] }, { "page": "tunelambda", "title": "Find optimial penalty parameter lambda by cross-validation.", "topics": [ "tunelambda" ] } ], "_readme": "https://github.com/haixuw1/pcode/raw/HEAD/README.md", "_rundeps": [ "ash", "bitops", "cli", "cluster", "colorspace", "cpp11", "deSolve", "farver", "fda", "fds", "FNN", "ggplot2", "glue", "gtable", "hdrcde", "isoband", "kernlab", "KernSmooth", "ks", "labeling", "lattice", "lifecycle", "locfit", "MASS", "Matrix", "mclust", "mgcv", "multicool", "mvtnorm", "nlme", "pcaPP", "pracma", "R6", "rainbow", "RColorBrewer", "Rcpp", "RCurl", "rlang", "S7", "scales", "vctrs", "viridisLite", "withr" ], "_vignettes": [ { "source": "pcode-vignette.Rmd", "filename": "pcode-vignette.html", "title": "Parameter cascade method for ODE models with pCODE", "author": "Haixu Wang, Jiguo Cao", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Package functions", "Parameter estimation: pcode", "Tuning $\\lambda$: tunelambda", "Variance estimation of $\\mathbf{\\theta}$: bootsvar and deltavar", "A simple example" ], "created": "2019-07-14 19:11:32", "modified": "2019-07-20 06:10:55", "commits": 3 } ], "_score": 4.477121254719663, "_indexed": true, "_nocasepkg": "pcode", "_universes": [ "haixuw1", "alex-haixuw" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.9.4", "date": "2026-10-10T16:54:17.000Z", "distro": "resolute", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/7a2091c0e0eb0c1b6c97e3d6b43b680c5a4aa8476ca03efe8679a514c70a2e58", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.6.1", "os": "linux", "version": "0.9.4", "date": "2026-10-10T16:54:08.000Z", "distro": "resolute", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/42e32ee877702e81b6e9e6783a341644bcc7f0eb46103ca6485c769673e24727", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.5.3", "os": "mac", "version": "0.9.4", "date": "2026-10-10T17:58:30.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/a7cd4d0d7563e8346bfa0759235ece47b398b10cb75f21e433cd031276463b0d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.6.1", "os": "mac", "version": "0.9.4", "date": "2026-10-10T17:58:39.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/8bd7c15b0a0ece365bd0ab3f9b2fd2a0f6a6744a7a801da040cec53268346edc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.6.0", "os": "wasm", "version": "0.9.4", "date": "2026-10-10T16:54:06.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/b146d8cc8b221c8776023bdf9750a33435b9e8f0d69c18c869746e49348e3227", "status": "success", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.7.0", "os": "win", "version": "0.9.4", "date": "2026-10-10T16:53:09.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/fe4b67a1e3423d0eeed0b994dc6167d69d9904cb5d49122b297de09da4eca06d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.5.3", "os": "win", "version": "0.9.4", "date": "2026-10-10T16:53:17.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/ac0618863238ace9d5e91b4248634883fe1ea8ee3e780b80c495294570f5a7d5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" }, { "r": "4.6.1", "os": "win", "version": "0.9.4", "date": "2026-10-10T16:53:26.000Z", "commit": "ecbfc5ef69fcb5293d91c7368da9273f3cde8ffd", "fileid": "https://r2.ropensci.org/af4a20afb5f8f5542f50a44ab9d0e1a8612eb158b60976fc3fc748bd597942d3", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/haixuw1/actions/runs/38069125257" } ] }