Man pages for bergsmat/nonmemica
Create and Evaluate NONMEM Models in a Project Context
| absolute | Check if File Path is Absolute |
| as.best | Convert to Best of Numeric or Character |
| as.best.default | Convert Vector to Best of Numeric or Character |
| as.bootstrap | Create a Bootstrap Table |
| as.bootstrap.bootstrap | Create Bootstrap from Bootstrap |
| as.bootstrap.numeric | Create Bootstrap from Numeric |
| as.character.init | Coerce init to character |
| as.character.inits | Coerce inits to character |
| as.character.items | Coerce Items to Character |
| as.character.model | Coerce NONMEM Control Object to character |
| as.character.problem | Coerce Problem to Character |
| as.data.frame.halfmatrix | Coerce Half Matrix to Data Frame |
| as.halfmatrix | Coerce to Half Matrix |
| as.halfmatrix.default | Coerce to Half Matrix by Default |
| as.halfmatrix.halfmatrix | Coerce Half Matrix to Half Matrix |
| as.init | Coerce to init |
| as.init.init | Coerce init to init |
| as.init.numeric | Coerces numeric to init |
| as.inits | Coerce to inits |
| as.inits.list | Coerce list to inits |
| as.inits.numeric | Coerce numeric to inits |
| as.items | Convert to Items |
| as.items.character | Convert to Items from Character |
| as.list.model | Coerce model to list |
| as.matrices | Coerce to List of Matrices |
| as.matrices.inits | Coerce to Matrices from Inits |
| as.matrices.records | Coerce to List of Matrices from Records |
| as.matrix.halfmatrix | Coerce Half Matrix to Matrix |
| as.model | Coerce to NONMEM Control Object |
| as.model.character | Coerce character to model |
| as.model.numeric | Coerce to Model from Numeric |
| as_nms_canonical | Coerce to 'nms_canonical' |
| as_nms_nonmem | Coerce to 'nms_nonmem' |
| as_nms_pmx | Coerce to 'nms_pmx' |
| as_nms_psn | Coerce to 'nms_psn' |
| as.omega | Extract Omegas |
| as.omega.model | Extract Omegas from Model |
| as.problem | Parse the Run Record |
| as.sigma | Extract Sigmas |
| as.sigma.model | Extract Sigmas from Model |
| as.tab | Extract Tables |
| as.tab.model | Extract Tables from Model |
| as.theta | Extract Thetas |
| as.theta.model | Extract Thetas from Model |
| as.xml_document | Create an xml_document in a Project Context |
| as.xml_document.character | Create xml_document From Character |
| as.xml_document.numeric | Coerce numeric to xml_document |
| but | Identify a Distinctive Feature |
| but.default | Identify the Distinctive Feature of a Model |
| cash-.init | Select init element |
| cash-set-.init | Set init element |
| comments | Extract Comments |
| comments.inits | Extract Comments from Inits |
| comments.items | Extract Comments from Items |
| comments.model | Extract Comments from Model |
| comwidth | Calculate Comment Widths Calculates comment widths. |
| comwidth.character | Calculate Comment Widths for Character |
| comwidth.inits | Calculate Comment Widths for Inits |
| comwidth.items | Calculate Comment Widths for Items |
| comwidthOne | Calculate Comment Widths for One Element |
| comwidthOne.character | Calculate Comment Widths for One Element of Character |
| contains | Check Whether Text Contains Pattern |
| datafile | Identify Datafile |
| datafile.character | Identify the Datafile for a Model |
| datafile.numeric | Identify Datafile from Numeric |
| definitions | Harvest Model Item Definitions |
| definitions.definitions | Create Model Item Definitions from definitions |
| definitions.numeric | Create Model Item Definitions from Number. |
| depends | Identify What Something Depends On |
| depends.default | Identify Model Dependencies |
| enclose | Enclose in Arbitrary Characters |
| errors | Get Errors |
| errors.character | Get Errors for Character |
| errors.numeric | Get Errors for Numeric |
| estimates | Get Estimates |
| estimates.character | Get Estimates for Character |
| estimates.numeric | Get Estimates for Numeric |
| fixed | Check if something is fixed |
| fixed.init | Check if init is fixed |
| fixed.model | Check If Model is Fixed |
| fixed-set | Set value of fixed attribute |
| fixed-set-.init | Set fixed init value |
| fixed-set-.inits | Set fixed attribute of inits |
| fixed-set-.model | Set fixed attribute of model |
| format.init | Format init |
| format.inits | Format inits |
| format.items | Format Items |
| format.model | Format model |
| generalize | Generalize a Nonmissing Value |
| grapes-contains-grapes | Check Whether x contains y |
| half | Find Half of Something |
| half.matrix | Find Half of Matrix |
| ignored | Extract Index for Ignored Records |
| initDex | Identify Indices of Initial Estimates |
| initDex.model | Identify Indices of Initial Estimates in model |
| initial | Get Initial Value |
| initial.model | Get Model Initial Estimates |
| initial-set | Set Initial Value |
| initial-set-.model | Set Upper Bounds for Model Initial Estimates |
| initSubscripts | Identify Subscripts |
| initSubscripts.model | Identify Subscripts of Initial Estimates in model |
| is.defined | Check Whether Elements are Defined |
| is.square | Test If Something is Square |
| is.square.matrix | Test If Matrix is Square |
| like | Identify What Something is Like |
| likebut | Modify a Model |
| like.default | Identify the Relevant Reference Model |
| locf | Impute Missing Vector Values |
| lower | Get Lower Value |
| lower.model | Get Lower Bounds for Model Initial Estimates |
| lower-set | Set Lower Value |
| lower-set-.model | Set Lower Bounds for Model Initial Estimates |
| maxWidths | Calculate Maximum Widths |
| maxWidths.list | Calculate Maximum Widths for List |
| meta | Get Metadata |
| meta.character | Get Metadata for Character |
| meta.numeric | Get Metadata for Numeric |
| metaplot_character | Metaplot Character, Standard Evaluation |
| metaplot.character | Metaplot Character |
| metaplot.numeric | Metaplot Numeric |
| metasuperset | Retrieve Model Outputs with Metadata |
| modeldir | Identify the Directory for a Model |
| modelfile | Identify the Modelfile for a Model |
| modelpath | Resolve A Path to a Model-related File |
| modelpath.character | Resolve A Path to a Model-related File for Character |
| modelpath.numeric | Resolve A Path to a Model-related File for Numeric |
| ninput | Calculate Number of Inputs |
| ninput.character | Calculate Number of Inputs for Character |
| ninput.numeric | Calculate Number of Inputs for Numeric |
| nms_canonical | Generate Canonical Names |
| nms_canonical.character | Generate Canonical Names for Character |
| nms_canonical.model | Generate Canonical Names for Model |
| nms_canonical.nms_nonmem | Convert NONMEM Parameter Names to Canonical |
| nms_canonical.nms_pmx | Convert Parameter Names to NONMEM |
| nms_canonical.numeric | Generate Canonical Names for Numeric |
| nms_nonmem | Generate NONMEM Names |
| nms_nonmem.character | Generate NONMEM Names for Character |
| nms_nonmem.model | Generate NONMEM Names for Model |
| nms_nonmem.nms_canonical | Convert Canonical Parameter Names to NONMEM |
| nms_nonmem.nms_pmx | Convert pmxTools Names to NONMEM |
| nms_nonmem.numeric | Generate NONMEM Names for Numeric |
| nms_pmx | Convert Parameter Names to pmxTools |
| nms_pmx.nms_canonical | Convert Canonical Names to pmxTools |
| nms_pmx.nms_nonmem | Convert NONMEM Names to pmxTools |
| nms_psn | Generate PsN-style Names |
| nms_psn.character | Generate PsN-style Names for Character |
| nms_psn.model | Generate PsN-style Names for Model |
| nms_psn.numeric | Generate PsN-style Names for Numeric |
| nonmemica | Create and Evaluate NONMEM Models in a Project Context |
| num_parameters | Get the Number of Parameters |
| num_parameters.default | Get the Number of Declared Parameters for a NONMEM Model |
| offdiag | Isolate Off-diagonal |
| offdiag.halfmatrix | Isolate Off-diagonal of Half Matrix |
| ord | Calculate Order |
| ord.halfmatrix | Calculate Order for Half Matrix |
| ord.inits | Identify the order of an inits |
| ord.items | Identify the Order of an Items Object |
| ord.matrix | Calculate Order for Matrix |
| padded | Pad Numeric with Zeros |
| parameters | Get Parameters |
| parameters.character | Get Parameters for Character |
| parameters.numeric | Get Parameters for Numeric |
| parens | Enclose in Parentheses |
| partab | Create Parameter Table |
| partab.character | Create a Parameter Table from Model Name |
| partab.numeric | Create Model Parameter Table from Number. |
| pool | Compare Sets |
| prettycom | Pretty-print a Comment |
| prettycom.character | Pretty-print a Comment for Character |
| print.halfmatrix | Print Half Matrix |
| print.init | Print init |
| print.inits | Print inits |
| print.items | Print Items |
| print.model | Print model |
| problem | Identify the Model Problem Statement |
| problem_ | Identify the Single Model Problem Statement |
| problem.character | Identify the Model Problem Statement for Character |
| problem.numeric | Identify the Model Problem Statement for Numeric |
| psn_nested | PsN Model File is Nested |
| psn_options | Set PsN Options |
| read.model | Read model |
| relativizePath | Relativize a Path |
| resolve | Resolve File Path |
| rosetta | Translate Parameter Names |
| row_col | Create Indexed Model Parameter Table from Xml_document |
| runhead | Find Positions in a Vector that Differ from Previous |
| runlog | Create a Runlog |
| runlog.character | Create a Runlog for Character |
| runlog.numeric | Create a Runlog for Numeric |
| safe_join | Join Data Safely |
| safe_join.data.frame | Join Data Frames Safely |
| shuffle | Move the Columns of a Data Frame Relative to Each Other |
| specfile | Identify Specfile |
| specfile.character | Identify the Data Specification File for a Model |
| specfile.numeric | Identify Specfile from Numeric |
| sub-.inits | Subset inits |
| sub-.model | Subset model |
| sub-sub-.model | Select model Element |
| superset | Coerce to Superset |
| superset.character | Coerce to Superset from Character |
| superset.numeric | Coerce to Superset from Numeric |
| superspec | Create Specification for Model Inputs and Outputs |
| superspec.character | Create Specification for Model Inputs and Outputs From... |
| superspec.numeric | Create Specification for Model Inputs and Outputs From... |
| tad | Calculate Time Since Most Recent Dose |
| tad1 | A NONMEM-like Dataset |
| text2decimal | Convert Text to Decimal |
| tod | Calculate Time of Most Recent Dose |
| tweak | Tweak Something |
| tweak.default | Tweak a Model by Default |
| tweak.init | Tweak Init |
| tweak.inits | Tweak inits |
| tweak.model | Tweak Model |
| updated | Create the Updated Version of Something |
| updated.character | Create the Updated Version of Character |
| updated.numeric | Create the Updated Version of Numeric |
| upper | Get Upper Value |
| upper.model | Get Upper Bounds for Model Initial Estimates |
| upper-set | Set Upper Value |
| upper-set-.model | Set Upper Bounds for Model Initial Estimates |
| val_name | Create Model Parameter Table from Xml_document |
| write.model | Write model |
| xpath | Evaluate Xpath Expression |
| xpath.default | Evaluate xpath Expression in Default Context |
| xpath.xml_document | Evaluate xpath Expression in Document Context |
