Clinical Pharmacokinetics Toolkit

Documentation for package ‘clinPK’ version 0.11.1

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clinPK

-- A --

absolute2relative_bsa	Convert quantity expressed in absolute units relative to normalized BSA
accumulation_ratio	Calculate accumulation ratio This is the ratio of drug concentration or AUC at steady state over concentrations after single dose
add_ruv	Add residual variability to data
as.num	factors or characters to numeric
auc2dose	Convert AUCtau or AUCt to dose (for 1-compartment linear PK model)

-- C --

calc_abw	Calculate adjusted body weight (ABW)
calc_aki_stage	Calculate AKI stage
calc_amts_for_conc	Calculate the amounts in all compartments in a compartmental PK system based on a given concentration in the central compartment, and assuming steady state.
calc_baseline_scr	Calculate baseline sCr
calc_bmi	Calculate BMI
calc_bsa	Calculate body surface area
calc_creat	Estimate serum creatinine
calc_creat_neo	Estimate serum creatinine in neonates
calc_dosing_weight	Calculate commonly used "dosing weight"
calc_egfr	Calculate eGFR
calc_egfr_cystatin	Calculate eGFR based on Cystatin C measurements
calc_ffm	Calculate fat-free mass
calc_ibw	Calculate ideal body weight in kg for children and adults
calc_kel_double_tdm	Calculate elimination rate when given two TDM samples
calc_kel_single_tdm	Calculate elimination rate when given a single TDM sample
calc_kgfr	Calculate kinetic GFR
calc_lbw	Calculate lean body weight
calc_t12	Calculate half-life based on two points
check_covs_available	Returns parameters needed to calculate eGFR according to the method specified.
cm2inch	Convert cm to inch
conc2mol	Convert concentration to molar
convert_creat_assay	Convert serum creatinine from various assays to Jaffe
convert_creat_unit	Convert creatinine to different unit
convert_flow_unit	Convert flow (e.g. clearance) from / to units

-- D --

dose2auc

Convert dose to expected AUCinf or AUCt for 1 compartment linear PK model

-- E --

egfr_bedside_schwartz	Calculate eGFR
egfr_ckd_epi	Calculate eGFR
egfr_ckd_epi_as_2021	Calculate eGFR
egfr_cockcroft_gault	Calculate eGFR
egfr_cockcroft_gault_sci	Calculate eGFR
egfr_cov_reqs	Returns parameters needed to calculate eGFR according to the method specified.
egfr_jelliffe	Calculate eGFR
egfr_jelliffe_unstable	Calculate eGFR
egfr_malmo_lund	Calculate eGFR
egfr_mdrd	Calculate eGFR
egfr_schwartz	Calculate eGFR
egfr_wright	Calculate eGFR

-- F --

ffm_al_sallami	Calculate fat-free mass
ffm_bucaloiu	Calculate fat-free mass
ffm_garrow_webster	Calculate fat-free mass
ffm_hume	Calculate fat-free mass
ffm_james	Calculate fat-free mass
ffm_janmahasatian_green	Calculate fat-free mass
ffm_storset	Calculate fat-free mass
find_factor	Helper function to grab the conversion factor from an input unit and given list
find_nearest_dose	Generic function to calculate the dose nearest to a specific dose unit increment
find_nearest_interval	Generic function to calculate the interval nearest to a possible dosing interval
fraction_of_ss	Calculate fraction of steady state at particular time after start of dosing

-- I --

ibw_devine	Calculate IBW using "devine" equation
ibw_standard	Calculate IBW using "standard" equation
inch2cm	Convert inch to cm
is.nil	Check if values in vector are empty

-- K --

kdigo_stage	Calculate AKI stage according to KDIGO criteria
kg2lbs	Convert kg to lbs
kg2oz	Convert kg to oz

-- L --

lbs2kg

Convert lbs to kg

-- M --

mol2conc

Convert molar to concentration

-- N --

nca	Perform an NCA based on a NONMEM-style dataset
nca_trapezoid	NCA core function to perform log-linear trapezoid calculations for post-infusion

-- O --

oz2kg

Convert oz to kg

-- P --

pct_bmi_for_age	Percentile BMI for age for children
pct_for_age_generic	Percentile height or weight for age for children
pct_height_for_age	Percentile height for age for children
pct_weight_for_age	Percentile weight for age for children
pk_1cmt_bolus	Concentration predictions for 1-compartmental PK model after single or multiple bolus doses
pk_1cmt_bolus_cmax_ss	Cmax for linear 1-compartment PK model at steady state, bolus dosing
pk_1cmt_bolus_cmin_ss	Cmin (trough) for linear 1-compartment PK model at steady state, bolus dosing
pk_1cmt_bolus_dose_from_cmax	Calculate dose to achieve steady state Cmax for 1-compartmental PK model bolus dosing at steady state
pk_1cmt_bolus_dose_from_cmin	Calculate dose to achieve steady state trough for 1-compartmental PK model bolus dosing at steady state
pk_1cmt_bolus_ss	Concentration predictions for 1-compartmental PK model with bolus dosing at steady state
pk_1cmt_inf	Concentration predictions for 1-compartmental PK model after single or multiple bolus doses
pk_1cmt_inf_cmax_ss	Cmax for linear 1-compartment PK model at steady state
pk_1cmt_inf_cmin_ss	Cmin (trough) for linear 1-compartment PK model at steady state
pk_1cmt_inf_dose_for_range	Calculate dose based on a given AUC24, Cmax, and Cmin, assuming 1-compartment model
pk_1cmt_inf_dose_from_cmax	Calculate dose to achieve steady state Cmax for 1-compartmental PK model with infusion dosing at steady state
pk_1cmt_inf_dose_from_cmin	Calculate dose to achieve steady state trough for 1-compartmental PK model with infusion dosing at steady state
pk_1cmt_inf_ss	Concentration predictions for 2-compartmental PK model with infusion dosing at steady state
pk_1cmt_oral	Concentration predictions for 1-compartmental oral PK model after single or multiple bolus doses
pk_1cmt_t12	Calculate terminal half-life for 1-compartment model
pk_2cmt_bolus	Concentration predictions for 2-compartmental PK model, single or multiple bolus doses
pk_2cmt_bolus_cmax_ss	Cmax for 2-compartmental PK model, bolus dosing at steady state
pk_2cmt_bolus_cmin_ss	Cmin (trough) for 2-compartmental PK model, bolus dosing at steady state
pk_2cmt_bolus_dose_from_cmax	Calculate dose to achieve steady state Cmax for 2-compartmental PK model bolus dosing at steady state
pk_2cmt_bolus_dose_from_cmin	Calculate dose to achieve steady state trough for 2-compartmental PK model bolus dosing at steady state
pk_2cmt_bolus_ss	Concentration predictions for 2-compartmental PK model, bolus dosing at steady state
pk_2cmt_inf	Concentration predictions for 2-compartmental PK model, single or multiple infusions
pk_2cmt_inf_cmax_ss	Cmax (trough) for 2-compartmental PK model, bolus dosing at steady state
pk_2cmt_inf_cmin_ss	Cmin (trough) for 2-compartmental PK model, bolus dosing at steady state
pk_2cmt_inf_dose_from_cmax	Calculate dose to achieve steady state Cmax for 2-compartmental PK model with infusion dosing at steady state
pk_2cmt_inf_dose_from_cmin	Calculate dose to achieve steady state trough for 2-compartmental PK model with infusion dosing at steady state
pk_2cmt_inf_ss	Concentration predictions for 2-compartmental PK model with infusion dosing at steady state
pk_2cmt_t12	Calculate half-life(s) for 2-compartment model
pk_2cmt_t12_interval	Calculate average half-life for 2-compartment model during a specific interval
print.nca_output	Print function for output from nca()

-- R --

read_who_table	Read WHO growth tables
relative2absolute_bsa	Convert quantity expressed relative to BSA to absolute units
remove_lt_gt	Remove less-than/greater-than symbols and convert to numeric

-- T --

time_to_ss

Time to steady state In either time units or number of doses

-- V --

valid_units

Valid units

-- W --

weight2kg

Convert any weight unit to kg

-- misc --

%<=%	Less-than-or-equal-to with a little room for floating point precision issues
%>=%	Greater-than-or-equal-to with a little room for floating point precision issues