Package: tci 0.2.1

tci: Target Controlled Infusion (TCI)

Implementation of target-controlled infusion algorithms for compartmental pharmacokinetic and pharmacokinetic-pharmacodynamic models. Jacobs (1990) <doi:10.1109/10.43622>; Marsh et al. (1991) <doi:10.1093/bja/67.1.41>; Shafer and Gregg (1993) <doi:10.1007/BF01070999>; Schnider et al. (1998) <doi:10.1097/00000542-199805000-00006>; Abuhelwa, Foster, and Upton (2015) <doi:10.1016/j.vascn.2015.03.004>; Eleveld et al. (2018) <doi:10.1016/j.bja.2018.01.018>.

Authors:Ryan Jarrett [aut, cre]

tci_0.2.1.tar.gz
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tci.pdf |tci.html✨
tci/json (API)

# Install 'tci' in R:

install.packages('tci', repos = c('https://jarretrt.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jarretrt/tci/issues

Uses libs:

c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

Datasets:

eleveld_pd - Eleveld et al. pharmacodynamic data
eleveld_pk - Eleveld et al. pharmacokinetic data

On CRAN:

46 exports 5 stars 1.11 score 44 dependencies 8 scripts 256 downloads

Last updated 2 years agofrom:23fb6a721a. Checks:ERROR: 9. Indexed: yes.

Target	Result	Date
Doc / Vignettes	FAIL	Aug 23 2024
R-4.5-win-x86_64	ERROR	Aug 23 2024
R-4.5-linux-x86_64	ERROR	Aug 23 2024
R-4.4-win-x86_64	ERROR	Aug 23 2024
R-4.4-mac-x86_64	ERROR	Aug 23 2024
R-4.4-mac-aarch64	ERROR	Aug 23 2024
R-4.3-win-x86_64	ERROR	Aug 23 2024
R-4.3-mac-x86_64	ERROR	Aug 23 2024
R-4.3-mac-aarch64	ERROR	Aug 23 2024

Exports:apply_tci assign_pars bayes_update clc elvdlpars emax emax_eleveld emax_inv emax_inv_eleveld emax_inv_remi emax_remi format_pars inf_manual inf_tci inf_tci_pop infer_pkfn init_pkmod init_poppkmod list_parnms list_pkmods log_likelihood log_posterior_neg log_prior olc pkmod pkmod_eleveld_ppf pkmod_eleveld_remi pkmod_kim pkmod_marsh pkmod_minto pkmod_schnider pkmod1cpt pkmod2cpt pkmod3cpt pkmod3cptm poppkmod sample_iiv sample_pkmod simulate_clc simulate_olc simulate_tci tci_effect tci_effect_only tci_plasma validate_pkmod validate_poppkmod

Dependencies:cli colorspace evaluate fansi farver ggplot2 glue gridExtra gtable highr isoband knitr labeling lattice lifecycle magrittr MASS Matrix mgcv munsell mvtnorm nlme pillar pkgconfig plyr R6 RColorBrewer Rcpp RcppArmadillo reshape reshape2 rlang scales stringi stringr tibble truncnorm utf8 vctrs viridisLite withr xfun xtable yaml

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Apply a TCI algorithm to a `pkmod` object	apply_tci
Set default PK parameter values Set default PK parameter values for a pkmod object.	assign_pars
Update PK-PD model parameters using observed data values	bayes_update
Simulate closed-loop control	clc
Eleveld et al. pharmacodynamic data	eleveld_pd
Eleveld et al. pharmacokinetic data	eleveld_pk
Get logged parameters updated in Eleveld model	elvdlpars
Emax function	emax
Emax function for Eleveld (2018) model.	emax_eleveld
Inverse Emax function	emax_inv
Inverse Emax function	emax_inv_eleveld
Inverse Emax function implemented by Eleveld remifentanil model	emax_inv_remi
Emax function implemented by Eleveld remifentanil model	emax_remi
Format parameters for use in Rcpp functions	format_pars
infusion schedule	inf_manual
Target-controlled infusion	inf_tci
Calculate infusion rates to reach target values within a population	inf_tci_pop
Identify pkfn from parameter names	infer_pkfn
Create an object with class "pkmod"	init_pkmod
Initialize a `poppkmod` object.	init_poppkmod
Identify pkfn from parameter names	list_parnms
Print population PK models available in `tci`	list_pkmods
Evaluate the log likelihood of a vector of parameter values	log_likelihood
Evaluate the negative log posterior value of a parameter vector	log_posterior_neg
Calculate logged-prior probability for a set of parameters	log_prior
Simulate open-loop control	olc
Create a pkmod object	pkmod
Eleveld population PK model for propofol	pkmod_eleveld_ppf
Eleveld population PK model for remifentanil	pkmod_eleveld_remi
Kim population PK model for remifentanil	pkmod_kim
-------------------------- Population PK and PK-PD functions --------------- -------------------------- Marsh population PK model for propofol	pkmod_marsh
Minto population PK model for remifentanil	pkmod_minto
Schnider population PK model for propofol	pkmod_schnider
One compartment IV infusion with first-order elimination.	pkmod1cpt
Two compartment IV infusion with first-order elimination.	pkmod2cpt
Three compartment IV infusion with first-order elimination.	pkmod3cpt
Solution to three-compartment IV model with effect-site	pkmod3cptm
Plot method for sim_tci class	plot.sim_tci
Implement a population pharmacokinetic/pharmacodynamic model.	poppkmod
Predict method for pkmod objects	predict.pkmod
Predict method for pkmod objects	predict.poppkmod
Print pkmod	print.pkmod
Print poppkmod	print.poppkmod
Print method for sim_tci class	print.sim_tci
Sample PK or PK-PD parameters from the distribution of inter- or intra-individual variability	sample_iiv
Sample parameters from a `pkmod` object	sample_pkmod
Simulate closed-loop control using Bayesian updates	simulate_clc
Simulate open-loop control using TCI	simulate_olc
Simulate open- or closed-loop control	simulate_tci
Simulate method for pkmod objects	simulate.pkmod
Summary method for `poppkmod` objects	simulate.poppkmod
tci_documentation	tci_documentation
Effect-site TCI algorithm with plasma targeting within small range of target	tci_effect
TCI algorithm for effect-site targeting	tci_effect_only
TCI algorithm for plasma targeting	tci_plasma
Update method for pkmod	update.pkmod
pkmod validation checks	validate_pkmod
Perform validation checks on a `poppkmod` object	validate_poppkmod