A B E G I L M O P R S U W Z misc
| as.ini | Turn into an ini block for initialization |
| as.ini.call | Turn into an ini block for initialization |
| as.ini.character | Turn into an ini block for initialization |
| as.ini.data.frame | Turn into an ini block for initialization |
| as.ini.default | Turn into an ini block for initialization |
| as.ini.lotriFix | Turn into an ini block for initialization |
| as.ini.matrix | Turn into an ini block for initialization |
| as.model | Turn into a model expression |
| as.model.call | Turn into a model expression |
| as.model.character | Turn into a model expression |
| as.model.default | Turn into a model expression |
| as.model.list | Turn into a model expression |
| as.rxUi | As rxode2 ui |
| as.rxUi.default | As rxode2 ui |
| as.rxUi.function | As rxode2 ui |
| as.rxUi.rxModelVars | As rxode2 ui |
| as.rxUi.rxode2 | As rxode2 ui |
| as.rxUi.rxode2tos | As rxode2 ui |
| as.rxUi.rxUi | As rxode2 ui |
| assertRxUi | Assert properties of the rxUi models |
| assertRxUiEstimatedResiduals | Assert properties of the rxUi models |
| assertRxUiMixedOnly | Assert properties of the rxUi models |
| assertRxUiMuRefOnly | Assert properties of the rxUi models |
| assertRxUiNormal | Assert properties of the rxUi models |
| assertRxUiPopulationOnly | Assert properties of the rxUi models |
| assertRxUiPrediction | Assert properties of the rxUi models |
| assertRxUiRandomOnIdOnly | Assert properties of the rxUi models |
| assertRxUiSingleEndpoint | Assert properties of the rxUi models |
| assertRxUiTransformNormal | Assert properties of the rxUi models |
| binomProbs | Calculate expected confidence bands with binomial sampling distribution |
| binomProbs.default | Calculate expected confidence bands with binomial sampling distribution |
| erf | Error function |
| expit | logit and inverse logit (expit) functions |
| gammap | Gammap: normalized lower incomplete gamma function |
| gammapDer | gammapDer: derivative of gammap |
| gammapInv | gammapInv and gammapInva: Inverses of normalized gammap function |
| gammapInva | gammapInv and gammapInva: Inverses of normalized gammap function |
| gammaq | Gammaq: normalized upper incomplete gamma function |
| gammaqInv | gammaqInv and gammaqInva: Inverses of normalized gammaq function |
| gammaqInva | gammaqInv and gammaqInva: Inverses of normalized gammaq function |
| genShinyApp.template | Generate an example (template) of a dosing regimen shiny app |
| geom_amt | Dosing/Amt geom/stat |
| geom_cens | Censoring geom/stat |
| getRxThreads | Get/Set the number of threads that rxode2 uses |
| ini | Ini block for rxode2/nlmixr models |
| ini.default | Ini block for rxode2/nlmixr models |
| ini.rxUi | Ini block for rxode2/nlmixr models |
| ini<- | Assign the ini block in the rxode2 related object |
| llikBeta | Calculate the log likelihood of the binomial function (and its derivatives) |
| llikBinom | Calculate the log likelihood of the binomial function (and its derivatives) |
| llikCauchy | log likelihood of Cauchy distribution and it's derivatives (from stan) |
| llikChisq | log likelihood and derivatives for chi-squared distribution |
| llikExp | log likelihood and derivatives for exponential distribution |
| llikF | log likelihood and derivatives for F distribution |
| llikGamma | log likelihood and derivatives for Gamma distribution |
| llikGeom | log likelihood and derivatives for Geom distribution |
| llikNbinom | Calculate the log likelihood of the negative binomial function (and its derivatives) |
| llikNbinomMu | Calculate the log likelihood of the negative binomial function (and its derivatives) |
| llikNorm | Log likelihood for normal distribution |
| llikPois | log-likelihood for the Poisson distribution |
| llikT | Log likelihood of T and it's derivatives (from stan) |
| llikUnif | log likelihood and derivatives for Unif distribution |
| llikWeibull | log likelihood and derivatives for Weibull distribution |
| logit | logit and inverse logit (expit) functions |
| logitNormInfo | logit and inverse logit (expit) functions |
| lowergamma | lowergamma: upper incomplete gamma function |
| meanProbs | Calculate expected confidence bands or prediction intreval with normal or t sampling distribution |
| meanProbs.default | Calculate expected confidence bands or prediction intreval with normal or t sampling distribution |
| model | Model block for rxode2/nlmixr models |
| model.default | Model block for rxode2/nlmixr models |
| model.function | Model block for rxode2/nlmixr models |
| model.rxModelVars | Model block for rxode2/nlmixr models |
| model.rxode2 | Model block for rxode2/nlmixr models |
| model.rxUi | Model block for rxode2/nlmixr models |
| model<- | Assign the model block in the rxode2 related object |
| modelExtract | Extract model lines from a rxui model |
| modelExtract.default | Extract model lines from a rxui model |
| modelExtract.function | Extract model lines from a rxui model |
| modelExtract.rxModelVars | Extract model lines from a rxui model |
| modelExtract.rxode2 | Extract model lines from a rxui model |
| modelExtract.rxUi | Extract model lines from a rxui model |
| odeMethodToInt | Conversion between character and integer ODE integration methods for rxode2 |
| plot.rxSolve | Plot rxode2 objects |
| plot.rxSolveConfint1 | Plot rxode2 objects |
| plot.rxSolveConfint2 | Plot rxode2 objects |
| predict.function | Options, Solving & Simulation of an ODE/solved system |
| predict.rxEt | Options, Solving & Simulation of an ODE/solved system |
| predict.rxode2 | Options, Solving & Simulation of an ODE/solved system |
| predict.rxParams | Options, Solving & Simulation of an ODE/solved system |
| predict.rxSolve | Options, Solving & Simulation of an ODE/solved system |
| predict.rxUi | Options, Solving & Simulation of an ODE/solved system |
| probit | probit and inverse probit functions |
| probitInv | probit and inverse probit functions |
| probitNormInfo | logit and inverse logit (expit) functions |
| rename.function | Rename items inside of a 'rxode2' ui model |
| rename.rxUi | Rename items inside of a 'rxode2' ui model |
| rxAllowUnload | Allow unloading of dlls |
| rxAppendModel | Append two rxui models together |
| rxAssignControlValue | Assign Control Variable |
| rxAssignPtr | Assign pointer based on model variables |
| rxbeta | Simulate beta variable from threefry generator |
| rxbinom | Simulate Binomial variable from threefry generator |
| rxcauchy | Simulate Cauchy variable from threefry generator |
| rxchisq | Simulate chi-squared variable from threefry generator |
| rxClean | Cleanup anonymous DLLs by unloading them |
| rxCompile | Compile a model if needed |
| rxCompile.character | Compile a model if needed |
| rxCompile.rxDll | Compile a model if needed |
| rxCompile.rxModelVars | Compile a model if needed |
| rxCompile.rxode2 | Compile a model if needed |
| rxControl | Options, Solving & Simulation of an ODE/solved system |
| rxControlUpdateSens | This updates the tolerances based on the sensitivity equations |
| rxCores | Get/Set the number of threads that rxode2 uses |
| rxCreateCache | This will create the cache directory for rxode2 to save between sessions |
| rxD | Add to rxode2's derivative tables |
| rxDelete | Delete the DLL for the model |
| rxDfdy | Jacobian and parameter derivatives |
| rxexp | Simulate exponential variable from threefry generator |
| rxf | Simulate F variable from threefry generator |
| rxFromSE | rxode2 to symengine environment |
| rxFun | Add/Create C functions for use in rxode2 |
| rxgamma | Simulate gamma variable from threefry generator |
| rxgeom | Simulate geometric variable from threefry generator |
| rxGetControl | rxGetControl option from ui |
| rxGetLin | Get the linear compartment model true function |
| rxGetrxode2 | Get rxode2 model from object |
| rxHtml | Format rxSolve and related objects as html. |
| rxHtml.rxSolve | Format rxSolve and related objects as html. |
| rxIndLinState | Set the preferred factoring by state |
| rxIndLinStrategy | This sets the inductive linearization strategy for matrix building |
| rxIndLin_ | Inductive linearization solver |
| rxInv | Invert matrix using RcppArmadillo. |
| rxIsCurrent | Checks if the rxode2 object was built with the current build |
| rxLhs | Left handed Variables |
| rxLock | Lock/unlocking of rxode2 dll file |
| rxnbinom | Simulate Binomial variable from threefry generator |
| rxnbinomMu | Simulate Binomial variable from threefry generator |
| rxNorm | Get the normalized model |
| rxnorm | Simulate random normal variable from threefry generator |
| rxnormV | Simulate random normal variable from threefry generator |
| RxODE | Create an ODE-based model specification |
| rxode | Create an ODE-based model specification |
| rxode2 | Create an ODE-based model specification |
| rxode2<- | Set the function body of an rxUi object while retaining other object information (like data) |
| rxode2<-.default | Set the function body of an rxUi object while retaining other object information (like data) |
| rxode2<-.function | Set the function body of an rxUi object while retaining other object information (like data) |
| RxODE<- | Set the function body of an rxUi object while retaining other object information (like data) |
| rxode<- | Set the function body of an rxUi object while retaining other object information (like data) |
| rxOptExpr | Optimize rxode2 for computer evaluation |
| rxord | Simulate ordinal value |
| rxParam | Parameters specified by the model |
| rxParams | Parameters specified by the model |
| rxParams.rxEt | Parameters specified by the model |
| rxParams.rxode2 | Parameters specified by the model |
| rxParams.rxSolve | Parameters specified by the model |
| rxPkg | Creates a package from compiled rxode2 models |
| rxpois | Simulate random Poisson variable from threefry generator |
| rxPp | Simulate a from a Poisson process |
| rxPreferredDistributionName | Change distribution name to the preferred distribution name term |
| rxProgress | rxode2 progress bar functions |
| rxProgressAbort | rxode2 progress bar functions |
| rxProgressStop | rxode2 progress bar functions |
| rxRemoveControl | rxRemoveControl options for UI object |
| rxRename | Rename items inside of a 'rxode2' ui model |
| rxRename.default | Rename items inside of a 'rxode2' ui model |
| rxRename.function | Rename items inside of a 'rxode2' ui model |
| rxRename.rxUi | Rename items inside of a 'rxode2' ui model |
| rxReservedKeywords | A list and description of rxode2 supported reserved keywords |
| rxResidualError | A description of Rode2 supported residual errors |
| rxRmFun | Add/Create C functions for use in rxode2 |
| rxS | Load a model into a symengine environment |
| rxSetControl | rxSetControl options for UI object |
| rxSetCovariateNamesForPiping | Assign covariates for piping |
| rxSetPipingAuto | Set the variables for the model piping automatic covarite selection |
| rxSetProd | Defunct setting of product |
| rxSetProgressBar | Set timing for progress bar |
| rxSetSum | Defunct setting of sum |
| rxShiny | Use Shiny to help develop an rxode2 model |
| rxShiny.default | Use Shiny to help develop an rxode2 model |
| rxShiny.rxSolve | Use Shiny to help develop an rxode2 model |
| rxSimThetaOmega | Simulate Parameters from a Theta/Omega specification |
| rxSolve | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.default | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.function | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.nlmixr2FitCore | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.nlmixr2FitData | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.rxode2tos | Options, Solving & Simulation of an ODE/solved system |
| rxSolve.rxUi | Options, Solving & Simulation of an ODE/solved system |
| rxState | State variables |
| rxSumProdModel | Recast model in terms of sum/prod |
| rxSupportedFuns | Get list of supported functions |
| rxSuppressMsg | Respect suppress messages |
| rxSymInvChol | Get Omega^-1 and derivatives |
| rxSyncOptions | Sync options with rxode2 variables |
| rxSyntaxFunctions | A list and description of Rode supported syntax functions |
| rxt | Simulate student t variable from threefry generator |
| rxTempDir | Get the rxode2 temporary directory |
| rxTest | Validate rxode2 This allows easy validation/qualification of nlmixr by running the testing suite on your system. |
| rxTheme | rxTheme is the ggplot2 theme for rxode2 plots |
| rxTick | rxode2 progress bar functions |
| rxToSE | rxode2 to symengine environment |
| rxTrans | Translate the model to C code if needed |
| rxTrans.character | Translate the model to C code if needed |
| rxTrans.default | Translate the model to C code if needed |
| rxUiCompress | Compress/Decompress 'rxode2' ui |
| rxUiDecompress | Compress/Decompress 'rxode2' ui |
| rxUiGet | S3 for getting information from UI model |
| rxUiGet.allCovs | S3 for getting information from UI model |
| rxUiGet.cmtLines | S3 for getting information from UI model |
| rxUiGet.covLhs | S3 for getting information from UI model |
| rxUiGet.default | S3 for getting information from UI model |
| rxUiGet.dvidLine | S3 for getting information from UI model |
| rxUiGet.etaLhs | S3 for getting information from UI model |
| rxUiGet.fun | S3 for getting information from UI model |
| rxUiGet.funPrint | S3 for getting information from UI model |
| rxUiGet.funTxt | S3 for getting information from UI model |
| rxUiGet.ini | S3 for getting information from UI model |
| rxUiGet.iniFun | S3 for getting information from UI model |
| rxUiGet.lhsCov | S3 for getting information from UI model |
| rxUiGet.lhsEta | S3 for getting information from UI model |
| rxUiGet.lhsTheta | S3 for getting information from UI model |
| rxUiGet.lhsVar | S3 for getting information from UI model |
| rxUiGet.lstChr | S3 for getting information from UI model |
| rxUiGet.md5 | S3 for getting information from UI model |
| rxUiGet.model | S3 for getting information from UI model |
| rxUiGet.modelDesc | S3 for getting information from UI model |
| rxUiGet.modelFun | S3 for getting information from UI model |
| rxUiGet.multipleEndpoint | S3 for getting information from UI model |
| rxUiGet.muRefTable | S3 for getting information from UI model |
| rxUiGet.omega | S3 for getting information from UI model |
| rxUiGet.params | S3 for getting information from UI model |
| rxUiGet.paramsLine | S3 for getting information from UI model |
| rxUiGet.simulationIniModel | S3 for getting information from UI model |
| rxUiGet.simulationModel | S3 for getting information from UI model |
| rxUiGet.simulationSigma | S3 for getting information from UI model |
| rxUiGet.symengineModelNoPrune | S3 for getting information from UI model |
| rxUiGet.symengineModelPrune | S3 for getting information from UI model |
| rxUiGet.theta | S3 for getting information from UI model |
| rxUiGet.thetaLhs | S3 for getting information from UI model |
| rxUiGet.thetaLower | S3 for getting information from UI model |
| rxUiGet.thetaUpper | S3 for getting information from UI model |
| rxUiGet.varLhs | S3 for getting information from UI model |
| rxunif | Simulate uniform variable from threefry generator |
| rxUnloadAll | Unloads all rxode2 compiled DLLs |
| rxUnlock | Lock/unlocking of rxode2 dll file |
| rxUse | Use model object in your package |
| rxValidate | Validate rxode2 This allows easy validation/qualification of nlmixr by running the testing suite on your system. |
| rxweibull | Simulate Weibull variable from threefry generator |
| setRxThreads | Get/Set the number of threads that rxode2 uses |
| simulate.rxode2 | Options, Solving & Simulation of an ODE/solved system |
| simulate.rxParams | Options, Solving & Simulation of an ODE/solved system |
| simulate.rxSolve | Options, Solving & Simulation of an ODE/solved system |
| solve.function | Options, Solving & Simulation of an ODE/solved system |
| solve.rxEt | Options, Solving & Simulation of an ODE/solved system |
| solve.rxode2 | Options, Solving & Simulation of an ODE/solved system |
| solve.rxParams | Options, Solving & Simulation of an ODE/solved system |
| solve.rxSolve | Options, Solving & Simulation of an ODE/solved system |
| solve.rxUi | Options, Solving & Simulation of an ODE/solved system |
| stat_amt | Dosing/Amt geom/stat |
| stat_cens | Censoring geom/stat |
| summary.rxode2 | Print expanded information about the rxode2 object. |
| update.rxSolve | Options, Solving & Simulation of an ODE/solved system |
| update.rxUi | Update for rxUi |
| uppergamma | uppergamma: upper incomplete gamma function |
| write.template.server | Generate an example (template) of a dosing regimen shiny app |
| write.template.ui | Generate an example (template) of a dosing regimen shiny app |
| zeroRe | Set random effects and residual error to zero |
| .copyUi | This copies the rxode2 UI object so it can be modified |
| .handleSingleErrTypeNormOrTFoceiBase | Handle the single error for normal or t distributions |
| .matchesLangTemplate | Check if a language object matches a template language object |
| .modelHandleModelLines | Handle model lines |
| .quoteCallInfoLines | Returns quoted call information |
| .rxFromSE | rxode2 to symengine environment |
| .rxLinCmtGen | Internal function to generate the model variables for a linCmt() model |
| .rxRename | Rename items inside of a 'rxode2' ui model |
| .rxToSE | rxode2 to symengine environment |
| .rxWithOptions | Temporarily set options then restore them while running code |
| .rxWithWd | Temporarily set options then restore them while running code |