Man pages for billdenney/pknca
Perform Pharmacokinetic Non-Compartmental Analysis

add.interval.colAdd columns for calculations within PKNCA intervals
addProvenanceAdd a hash and associated information to enable checking...
adj.r.squaredCalculate the adjusted r-squared value
AIC.listAssess the AIC for all models in a list of models
as.data.frame.PKNCAresultsExtract the parameter results from a PKNCAresults and return...
business.meanGenerate functions to do the named function (e.g. mean)...
check.conc.timeVerify that the concentration and time are valid
check.conversionCheck that the conversion to a data type does not change the...
check.interval.depsTake in a single row of an interval specification and return...
check.interval.specificationCheck the formatting of a calculation interval specification...
checkProvenanceCheck the hash of an object to confirm its provenance.
choose.auc.intervalsChoose intervals to compute AUCs from time and dosing...
clean.conc.blqHandle BLQ values in the concentration measurements as...
clean.conc.naHandle NA values in the concentration measurements as...
excludeExclude data points or results from calculations or...
exclude_ncaExclude NCA parameters based on examining the parameter set.
findOperatorFind the first occurrence of an operator in a formula and...
find.tauFind the repeating interval within a vector of doses
fit_half_lifePerform the half-life fit given the data. The function...
formulaOrNamesWhen parsing the input for 'PKNCAconc' and 'PKNCAdose' allow...
formula.parseFormulaConvert the parsed formula back into the original
formula.PKNCAconcExtract the formula from a PKNCAconc object.
geomeanCompute the geometric mean, sd, and CV
getAttributeColumnRetrieve the value of an attribute column.
get.best.modelExtract the best model from a list of models using AIC.list.
getColumnValueOrNotGet the value from a column in a data frame if the value is a...
getDataNameGet the name of the element containing the data for the...
getData.PKNCAconcExtract all the original data from a PKNCAconc or PKNCAdose...
getData.PKNCAdataExtract all the original data from a PKNCAconc or PKNCAdose...
getData.PKNCAresultsExtract all the original data from a PKNCAconc or PKNCAdose...
getDepVarGet the dependent variable (left hand side of the formula)...
get.first.modelGet the first model from a list of models
getGroups.PKNCAconcGet the groups (right hand side after the '|' from a PKNCA...
getIndepVarGet the independent variable (right hand side of the formula)...
get.interval.colsGet the columns that can be used in an interval specification
get.parameter.depsGet all columns that depend on a parameter
interp.extrap.concInterpolate concentrations between measurements or...
merge.splitlistMerge two or more lists with a data.frame 'groupid' attribute...
model.frame.PKNCAconcExtract the columns used in the formula (in order) from a...
normalize_excludeNormalize the exclude column by setting blanks to NA
parseFormulaParse a formula into its component parts.
pk.businessRun any function with a maximum missing fraction of X and 0s...
pk.calc.aeCalculate amount excreted (typically in urine or feces)
pk.calc.aucpextCalculate the AUC percent extrapolated
pk.calc.auxcA compute the Area Under the (Moment) Curve
pk.calc.c0Estimate the concentration at dosing time for an IV bolus...
pk.calc.cavCalculate the average concentration during an interval.
pk.calc.ceoiDetermine the concentration at the end of infusion
pk.calc.clCalculate the (observed oral) clearance
pk.calc.clast.obsDetermine the last observed concentration above the limit of...
pk.calc.clrCalculate renal clearance
pk.calc.cmaxDetermine maximum observed PK concentration
pk.calc.ctroughDetermine the trough (predose) concentration
pk.calc.deg.flucDetermine the degree of fluctuation
pk.calc.dnDetermine dose normalized NCA parameter
pk.calc.fCalculate the absolute (or relative) bioavailability
pk.calc.feCalculate fraction excreted (typically in urine or feces)
pk.calc.half.lifeCompute the half-life and associated parameters
pk.calc.kelCalculate the elimination rate (Kel)
pk.calc.mrtCalculate the mean residence time (MRT) for single-dose data...
pk.calc.mrt.mdCalculate the mean residence time (MRT) for multiple-dose...
pk.calc.ptrDetermine the peak-to-trough ratio
pk.calc.swingDetermine the PK swing
pk.calc.thalf.effCalculate the effective half-life
pk.calc.tlagDetermine the observed lag time (time before the first...
pk.calc.tlastDetermine time of last observed concentration above the limit...
pk.calc.tmaxDetermine time of maximum observed PK concentration
pk.calc.vdCalculate the volume of distribution (Vd) or observed volume...
pk.calc.vssCalculate the steady-state volume of distribution (Vss)
pk.calc.vzCalculate the terminal volume of distribution (Vz)
pk.ncaCompute NCA parameters for each interval for each subject.
PKNCACompute noncompartmental pharmacokinetics
PKNCA.choose.optionChoose either the value from an option list or the current...
PKNCAconcCreate a PKNCAconc object
PKNCAdataCreate a PKNCAdata object.
PKNCAdoseCreate a PKNCAdose object
pk.nca.intervalCompute all PK parameters for a single concentration-time...
PKNCA.optionsSet default options for PKNCA functions
PKNCA.options.describeDescribe a PKNCA.options option by name.
PKNCAresultsGenerate a PKNCAresults object
PKNCA.set.summaryDefine how NCA parameters are summarized.
pk.tssCompute the time to steady-state (tss)
pk.tss.data.prepClean up the time to steady-state parameters and return a...
pk.tss.monoexponentialCompute the time to steady state using nonlinear,...
pk.tss.monoexponential.individualA helper function to estimate individual and single outputs...
pk.tss.monoexponential.populationA helper function to estimate population and popind outputs...
pk.tss.stepwise.linearCompute the time to steady state using stepwise test of...
plot.PKNCAconcPlot a PKNCAconc object
print.PKNCAconcPrint and/or summarize a PKNCAconc or PKNCAdose object.
print.PKNCAdataPrint a PKNCAdata object
print.provenancePrint the summary of a provenance object
reexportsObjects exported from other packages
roundingSummarizeDuring the summarization of PKNCAresults, do the rounding of...
roundStringRound a value to a defined number of digits printing out...
setAttributeColumnAdd an attribute to an object where the attribute is added as...
setDurationSet the duration of dosing or measurement
setExcludeColumnSet the exclude parameter on an object
setRouteSet the dosing route
signifStringRound a value to a defined number of significant digits...
sort.interval.colsSort the interval columns by dependencies.
split.PKNCAconcDivide into groups
summary.PKNCAdataSummarize a PKNCAdata object showing important details about...
summary.PKNCAresultsSummarize PKNCA results
superpositionCompute noncompartmental superposition for repeated dosing
tss.monoexponential.generate.formulaA helper function to generate the formula and starting values...
billdenney/pknca documentation built on Dec. 4, 2017, 12:01 p.m.