Package: npde 3.5
npde: Normalised Prediction Distribution Errors for Nonlinear Mixed-Effect Models
Provides routines to compute normalised prediction distribution errors, a metric designed to evaluate non-linear mixed effect models such as those used in pharmacokinetics and pharmacodynamics.
Authors:
npde_3.5.tar.gz
npde_3.5.zip(r-4.5)npde_3.5.zip(r-4.4)npde_3.5.zip(r-4.3)
npde_3.5.tgz(r-4.4-any)npde_3.5.tgz(r-4.3-any)
npde_3.5.tar.gz(r-4.5-noble)npde_3.5.tar.gz(r-4.4-noble)
npde_3.5.tgz(r-4.4-emscripten)npde_3.5.tgz(r-4.3-emscripten)
npde.pdf |npde.html✨
npde/json (API)
| # Install 'npde' in R: |
| install.packages('npde', repos = c('https://ecomets.r-universe.dev', 'https://cloud.r-project.org')) |
- simtheopp - Simulated data for the computation of normalised prediction distribution errors in the theophylline dataset
- simvirload - Simulated HIV viral loads in HIV patients
- simwarfarinCov - Pharmacokinetics of warfarin
- theopp - Pharmacokinetics of theophylline
- virload - Simulated HIV viral loads in HIV patients
- virload20 - Simulated HIV viral loads in HIV patients
- virload50 - Simulated HIV viral loads in HIV patients
- virloadMDV20 - Simulated HIV viral loads in HIV patients
- warfarin - Pharmacokinetics of warfarin
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 7 months agofrom:31f075e207. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 14 2024 |
| R-4.5-win | OK | Sep 14 2024 |
| R-4.5-linux | OK | Sep 14 2024 |
| R-4.4-win | OK | Sep 14 2024 |
| R-4.4-mac | OK | Sep 14 2024 |
| R-4.3-win | OK | Sep 14 2024 |
| R-4.3-mac | OK | Sep 14 2024 |
Exports:autonpdecheck.control.optionsdist.pred.simgof.testkurtosisnpdenpde.binningnpde.graphsnpde.plot.covariatenpde.plot.datanpde.plot.defaultnpde.plot.distnpde.plot.loqnpde.plot.npdnpde.plot.npdenpde.plot.pdnpde.plot.scatterplotnpde.plot.selectnpde.plot.splitcovnpde.savenpdeControlnpdeDatanpdeSimDataprintgoftestreadreplace.control.optionsset.plotoptionsshowshowallskewness
Dependencies:clicolorspacefansifarverggplot2gluegridExtragtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmclustmgcvmunsellnlmepillarpkgconfigR6RColorBrewerrlangscalestibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Normalised prediction distribution errors for nonlinear mixed-effect models | npde-package |
| Get/set methods for NpdeData object | [ [,NpdeData-method [,NpdeObject-method [,NpdeRes-method [,NpdeSimData [,NpdeSimData-method [<-,NpdeData-method [<-,NpdeObject-method [<-,NpdeRes-method [<-,NpdeSimData [<-,NpdeSimData-method |
| Compute normalised prediction distribution errors | autonpde npde |
| Compute distribution of pd/npde using simulations | calcnpde.sim dist.pred.sim |
| Goodness-of-fit tests for npde | gof.test gof.test.default gof.test.NpdeObject gof.test.NpdeRes gof.test.numeric printgoftest |
| Kurtosis | kurtosis |
| Internal functions used to produce prediction intervals | npde.binning |
| Method used to handle censored data | computenpde.loq computenpde.omit npde.cens.method |
| Decorrelation methods in npde | decorr.chol decorr.inverse decorr.polar npde.decorr.method |
| Save the graphs for a NpdeObject object to a file | npde.graphs npde.graphs,NpdeObject-method |
| Covariate diagnostic plots | aux.npdeplot.boxcov npde.plot.covariate |
| Plot a NpdeData object | npde.plot.data |
| Diagnostic plots | npde.plot.default plot |
| Distribution plots of pd/npde | aux.npdeplot.dist aux.npdeplot.hist npde.plot.dist |
| Plot of the probability that the observations are below the LOQ | npde.plot.loq |
| Plots for pd and npde | npde.plot.npd npde.plot.npde npde.plot.pd |
| Scatterplots and VPC | aux.npdeplot.computepi aux.npdeplot.meanprof aux.npdeplot.pimat aux.npdeplot.transformObs aux.npdeplot.transformPI compute.bands compute.bands.true npde.plot.scatterplot |
| Select plot for a NpdeObject object | npde.plot.select |
| Plots split by covariate for a NpdeObject object | npde.plot.splitcov |
| Save the results contained in a NpdeObject object to a file | npde.save npde.save,NpdeObject-method |
| Set options for an NpdeObject | check.control.options npdeControl replace.control.options |
| Creates a NpdeData object | npdeData |
| Class "NpdeData" representing the structure of the longitudinal data | npde.qqplot,NpdeData-method NpdeData NpdeData-class print,NpdeData-method summary,NpdeData-method |
| Class "NpdeObject" | npde.graphs,NpdeObject npde.main,NpdeObject npde.save,NpdeObject NpdeObject NpdeObject-class plot,NpdeObject print,NpdeObject-method showall,NpdeObject-method summary,NpdeObject-method test,NpdeObject-method |
| Creates a NpdeSimData object | npdeSimData |
| Class "NpdeSimData" representing the structure of the longitudinal data | NpdeSimData NpdeSimData-class |
| Plots a NpdeData object | plot.NpdeData |
| Plots a NpdeObject object | plot.npde plot.NpdeObject plotNpde |
| Prints objects from the npde package | print.NpdeData print.NpdeObject print.NpdeRes |
| Set graphical preferences | set.plotoptions set.plotoptions,NpdeData-method set.plotoptions,NpdeObject-method set.plotoptions.default set.plotoptions.NpdeData set.plotoptions.NpdeObject |
| Displays npde objects | show show,NpdeData-method show,NpdeObject-method show,NpdeRes-method show,NpdeSimData-method show,Object-method show.NpdeData show.NpdeObject show.NpdeRes show.NpdeSimData |
| Contents of an object | showall showall,method showall,NpdeData-method showall.default showall.NpdeData showall.NpdeObject showall.NpdeRes |
| Simulated data for the computation of normalised prediction distribution errors in the theophylline dataset | simtheopp |
| Skewness | skewness |
| Subsetting a NpdeData object | subset.NpdeData subset.NpdeObject |
| Summary of a NpdeData object | summary.NpdeData summary.NpdeObject summary.NpdeRes |
| Pharmacokinetics of theophylline | theopp |
| Simulated HIV viral loads in HIV patients | simvirload virload virload20 virload50 virloadMDV20 |
| Pharmacokinetics of warfarin | simwarfarinBase simwarfarinCov warfarin |
