Package: babelmixr2 0.1.3
babelmixr2: Use 'nlmixr2' to Interact with Open Source and Commercial Software
Run other estimation and simulation software via the 'nlmixr2' (Fidler et al (2019) <doi:10.1002/psp4.12445>) interface including 'PKNCA', 'NONMEM' and 'Monolix'. While not required, you can get/install the 'lixoftConnectors' package in the 'Monolix' installation, as described at the following url <https://monolix.lixoft.com/monolix-api/lixoftconnectors_installation/>. When 'lixoftConnectors' is available, 'Monolix' can be run directly instead of setting up command line usage.
Authors:
babelmixr2_0.1.3.tar.gz
babelmixr2_0.1.3.zip(r-4.5)babelmixr2_0.1.3.zip(r-4.4)babelmixr2_0.1.3.zip(r-4.3)
babelmixr2_0.1.3.tgz(r-4.4-x86_64)babelmixr2_0.1.3.tgz(r-4.4-arm64)babelmixr2_0.1.3.tgz(r-4.3-x86_64)babelmixr2_0.1.3.tgz(r-4.3-arm64)
babelmixr2_0.1.3.tar.gz(r-4.5-noble)babelmixr2_0.1.3.tar.gz(r-4.4-noble)
babelmixr2_0.1.3.tgz(r-4.4-emscripten)babelmixr2_0.1.3.tgz(r-4.3-emscripten)
babelmixr2.pdf |babelmixr2.html✨
babelmixr2/json (API)
NEWS
# Install 'babelmixr2' in R: |
install.packages('babelmixr2', repos = c('https://nlmixr2.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/nlmixr2/babelmixr2/issues
Last updated 7 hours agofrom:07e7f12ede. Checks:OK: 1 NOTE: 8. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Sep 07 2024 |
R-4.5-win-x86_64 | NOTE | Sep 07 2024 |
R-4.5-linux-x86_64 | NOTE | Sep 07 2024 |
R-4.4-win-x86_64 | NOTE | Sep 07 2024 |
R-4.4-mac-x86_64 | NOTE | Sep 07 2024 |
R-4.4-mac-aarch64 | NOTE | Sep 07 2024 |
R-4.3-win-x86_64 | NOTE | Sep 07 2024 |
R-4.3-mac-x86_64 | NOTE | Sep 07 2024 |
R-4.3-mac-aarch64 | NOTE | Sep 07 2024 |
Exports:.minfo.popedF.popedFree.popedRxRunSetup.popedSetup.popedSolveIdME.popedSolveIdME2.popedSolveIdN.popedSolveIdN2.popedWas.nlmixras.nlmixr2as.nonmem2rxbblDatToMonolixbblDatToMrgsolvebblDatToNonmembblDatToPkncabblDatToRxodegetStandardColNamesgetValidNlmixrCtlmodelUnitConversionmonolixControlnlmixr2EstnmGetDistributionMonolixLinesnmGetDistributionNonmemLinesnmObjGetControlnmObjGetFoceiControlnmObjHandleControlObjectnonmem2rxnonmemControlpkncaControlpopedControlrxModelVarsrxToMonolixrxToNonmemrxUiGetsimplifyUnit
Dependencies:askpassassertthatbackportsbase64encBHbinombitbit64bitopsbootbslibcachemcellrangercheckmateclassclassIntclicliprclustercolorspacecommonmarkcpp11cpp11armadillocrayoncurldata.tableDerivDescToolsdigestdparserdplyre1071evaluateExactexpmfansifarverfastmapfontawesomeforeignFormulafsgenericsggforceggplot2ggtextgldgluegridExtragridtextgtablehighrHmischmshtmlTablehtmltoolshtmlwidgetshttrinlineisobandjpegjquerylibjsonliteKernSmoothknitrlabelinglatticelazyevallbfgsb3clifecyclelmomlotrimagrittrmarkdownMASSMatrixmemoisemgcvmimeminpack.lmminqamunsellmvtnormn1qn1nlmenlmixr2nlmixr2datanlmixr2estnlmixr2extranlmixr2plotnnetnonmem2rxnumDerivopensslpanderpillarpkgconfigpngpolyclipPreciseSumsprettyunitsprogressproxypurrrqsR6RApiSerializerappdirsRColorBrewerRcppRcppArmadilloRcppEigenRcppParallelRCurlreadrreadxlrematchrexrlangrmarkdownrootSolverpartrstudioapirxode2rxode2llsassscalessitmoStanHeadersstringfishstringistringrsurvivalsymenginesyssystemfontstibbletidyrtidyselecttinytextweenrtzdbutf8vctrsviridisviridisLitevpcvroomwithrxfunxgxrxml2yaml
Creating a New Estimation Method
Rendered fromnew-estimation.Rmd
usingknitr::rmarkdown
on Sep 07 2024.Last update: 2023-05-24
Started: 2022-10-22
Obtain initial estimates and unit conversions with PKNCA
Rendered fromrunning-pknca.Rmd
usingknitr::rmarkdown
on Sep 07 2024.Last update: 2023-10-22
Started: 2023-10-22
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Setup the poped database | .setupPopEDdatabase |
Convert an object to a nlmixr2 fit object | as.nlmixr as.nlmixr2 |
Convert nlmixr2-compatible data to other formats (if possible) | bblDatToMonolix bblDatToMrgsolve bblDatToNonmem bblDatToPknca bblDatToRxode |
Determine standardized rxode2 column names from data | getStandardColNames |
Unit conversion for pharmacokinetic models | modelUnitConversion |
Monolix Controller for nlmixr2 | monolixControl |
Estimate starting parameters using PKNCA | nlmixr2Est.pknca |
NONMEM estimation control | nonmemControl |
PKNCA estimation control | pkncaControl |
Control for a PopED design task | popedControl |
Convert RxODE syntax to monolix syntax | rxToMonolix |
Convert RxODE syntax to NONMEM syntax | rxToNonmem |
Simplify units by removing repeated units from the numerator and denominator | simplifyUnit |