Clinical Pharmacokinetics Toolkit

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Documentation for package ‘clinPK’ version 0.11.1

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A C D E F I K L M N O P R T V W misc

clinPK-package 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