Man pages for campsismod
Generic Implementation of a PK/PD Model

add	Add element to list.
addODECompartment	Add ODE compartment to compartments object.
addProperties	Add properties to compartments object.
addSuffix	Generic function to add a suffix to various objects like...
allNa	Check is vector has NA's only.
appendCodeRecords	Append code records
appendComment	Append comment.
appendCompartments	Append compartments.
appendModel	Append model (or simply add).
appendParameters	Append parameters.
as.data.frame	As data frame method.
assertSingleCharacterString	Assert the given character vector is a single character...
autoDetectNONMEM	Auto-detect special variables from NONMEM as compartment...
Bioavailability	Create a bioavailability for the specified compartment.
CampsisModel	Create a new CAMPSIS model.
campsis_model-class	CAMPSIS model class.
code_record-class	Code record class. See this code record as an abstract class....
CodeRecords	Create a list of code records.
Comment	Create a new comment.
comment-class	Comment class. A statement starting with #.
Compartment	Create a compartment.
compartment_bioavailability-class	Compartment bioavailability class.
compartment-class	Compartment class.
compartment_infusion_duration-class	Compartment infusion duration class.
compartment_infusion_rate-class	Compartment infusion rate class.
compartment_initial_condition-class	Compartment initial condition class.
compartment_lag_time-class	Compartment lag time class.
compartment_properties-class	Compartment properties class.
compartment_property-class	Compartment property class.
Compartments	Create a list of compartments
compartments-class	Compartments class.
contains	Check if an element exists in list.
convertAnyComment	Convert CAMPSIS comment style to C/C++ code. Only the first #...
convertOutvarsToCapture	Convert outvars argument to capture. Variables that are...
default	Get default element from list.
delete	Delete an element from this list.
disable	Disable.
double_array_parameter-class	Double-array parameter class. This parameter has 2 indexes....
duration_record-class	(Infusion)-duration record class.
Equation	Create a new equation.
equation-class	Equation class. Any statement in the form A = B.
ErrorRecord	Create ERROR code record.
error_record-class	Error record class.
export	Export function.
export_type-class	Export type class.
extractLhs	Extract left-hand-side expression.
extractRhs	Extract right-hand-side expression.
extractTextBetweenBrackets	Extract text between brackets.
find	Find an element in list.
fixOmega	Fix omega matrix for SAME OMEGA parameters that have NA...
f_record-class	Bioavailability record class.
getByIndex	Get element by index.
getByName	Get an element from a list by name. Never return more than 1...
getCompartmentIndex	Get the compartment index for the specified compartment name.
getCompartments	Detect all compartments names from the code records. Only for...
getName	Get element name.
getNameInModel	Get the name of the given parameter in the CAMPSIS model.
getNames	Get element names from list.
getNONMEMName	Get NONMEM name.
getPrefix	Get prefix.
getRecordDelimiter	Get record delimiter.
getRecordEquationNames	Get record equation names
getRecordName	Get record name.
getUncertainty	Get uncertainty on the parameters.
getVarCov	Get variance-covariance matrix.
grapes-greater-than-grapes	Magritt operator for piping.
hasComment	Check if string contains CAMPSIS-style comments.
IfStatement	Create a new IF-statement.
if_statement-class	If-statement class. Any statement in the form if (condition)...
ifStatementPatternStr	Return the IF-statement pattern (string form).
indexOf	Get the index of an element in list.
InfusionDuration	Create an infusion duration.
InfusionRate	Create an infusion rate.
InitialCondition	Create an initial condition.
init_record-class	Init record class.
isComment	Check if string is a CAMPSIS comment (i.e. not an equation).
isDiag	Is diagonal.
isEmptyLine	Check if string is an empty line.
isEquation	Say if line in record is an equation not.
isIfStatement	Say if line in record is an IF-statement.
isODE	Say if line(s) in record is/are ODE or not.
isRecordDelimiter	Is record delimiter. A record delimiter is any line starting...
isStrictRecordDelimiter	Is strict record delimiter. A strict record delimiter is any...
lag_record-class	Lag record class.
LagTime	Create a lag time for the specified compartment.
length	Return the length of this list.
LineBreak	Create a new line break.
line_break-class	Line-break class. A linebreak in the model.
MainRecord	Create MAIN code record.
main_record-class	Main record class.
matchDoubleArrayParameter	Match double array parameter from list based on the name...
matchSingleArrayParameter	Match single array parameter from list based on the name...
maxIndex	Max index.
methodsGlobalFunctions	A empty method only used to declare some of the global...
minIndex	Min index.
model_statement-class	Model statement class. Any statement in a code record.
ModelStatements	Create an empty list of model statements.
model_statements-class	Model statements class. A list of statements.
model_suite	CAMPSIS model suite.
mrgsolveBlock	Convert code record for mrgsolve.
mrgsolveCapture	Get the CAPTURE block for mrgsolve.
mrgsolveCompartment	Get the compartment block for mrgsolve.
mrgsolveMain	Get the MAIN block for mrgsolve.
mrgsolveMatrix	Get the OMEGA/SIGMA matrix for mrgsolve.
mrgsolveOde	Get the ODE block for mrgsolve.
mrgsolveParam	Get the parameters block for mrgsolve.
mrgsolveTable	Get the TABLE block for mrgsolve.
mrgsolve_type-class	Mrgsolve export type class.
Ode	Create a new ordinary differential equation (ODE).
ode-class	ODE class. Any statement in the form d/dt(A_CMT) = B.
OdeRecord	Create ODE code record.
ode_record-class	ODE record class.
Omega	Create an OMEGA parameter.
omega-class	Omega parameter class.
parameter-class	Parameter class. Any parameter in a pharmacometric model.
Parameters	Create a list of parameters.
parameters-class	Parameters class.
parseIfStatement	Parse IF-statement. Assumption: isIfStatement method already...
parseStatements	Parse statements code and return CAMPSIS statements.
Pattern	Create a pattern.
pattern-class	Pattern class.
pmx_element-class	PMX element class.
pmx_list-class	PMX list class.
pmx_position_by_element-class	PMX position by element class.
pmx_position_by_index-class	PMX position by index class.
pmx_position-class	PMX position class.
Position	Element position in list.
processDoubleArrayArguments	Process double array arguments.
processExtraArg	Process extra arguments.
properties_record-class	Properties record class.
rate_record-class	(Infusion)-rate record class.
read	Generic read method to read data from a file or a folder.
read.allparameters	Read all parameters files at once.
read.campsis	Read a CAMPSIS model.
read.model	Read model file.
read.parameters	Read parameters file.
read.pmxmod	Read a CAMPSIS model (deprecated).
read.varcov	Read variance-covariance file.
removeNaColumn	Remove given column(s) if it has only NA's.
removeTrailingLineBreaks	Remove all trailing line breaks.
replace	Replace element by another in list.
replaceAll	Replace all occurrences in object.
rxodeCode	Get code for RxODE.
rxodeMatrix	Get the OMEGA/SIGMA matrix for RxODE.
rxodeParams	Get the parameters vector for RxODE.
rxode_type-class	RxODE export type class.
select	Get a subset of an object.
Sigma	Create a SIGMA parameter.
sigma-class	Sigma parameter class.
single_array_parameter-class	Single-array parameter class. This parameter has a single...
sort	Sort the specified list.
standardise	Standardise.
statements_record-class	Statements record class.
Theta	Create a THETA parameter.
theta-class	Theta parameter class.
toString	ToString generic method.
trim	Trim character vector. Remove all leading and trailing...
UnknownStatement	Create a new ordinary differential equation (ODE).
unknown_statement-class	Unknown statement class. Any statement not recognized by...
UnsupportedDestException	Unknown destination engine exception.
updateCompartments	Update compartments list from the persisted records. Exported...
VariablePattern	Create a variable pattern.
variable_pattern-class	Variable pattern class.
variablePatternNoStartStr	Return the variable pattern (string form), without the first...
variablePatternStr	Return the variable pattern (string form).
write	Write generic object to files.
writeParameters	Write subset of parameters (theta, omega or sigma).
writeRecordDelimiter	Write record delimiter line.
writeVarcov	Write variance-covariance matrix.