Package: crm12Comb 0.1.7

crm12Comb: Phase I/II CRM Based Drug Combination Design

Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.

Authors:Junying Wang [cre, aut], Song Wu [aut], Jie Yang [aut]

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crm12Comb.pdf |crm12Comb.html✨
crm12Comb/json (API)

# Install 'crm12Comb' in R:

install.packages('crm12Comb', repos = c('https://junying5372.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

examples_results - Output dataset for examples given list of inputs

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

20 exports 0.49 score 38 dependencies 2 scripts 717 downloads

Last updated 1 days agofrom:1003b7b4d9. Checks:OK: 1 NOTE: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 17 2024
R-4.5-win	NOTE	Sep 17 2024
R-4.5-linux	NOTE	Sep 17 2024
R-4.4-win	NOTE	Sep 17 2024
R-4.4-mac	NOTE	Sep 17 2024
R-4.3-win	NOTE	Sep 17 2024
R-4.3-mac	NOTE	Sep 17 2024

Exports:doseComb_to_mat efficacy_est empiric_GammaPriorLikelihood empiric_NormalPriorLikelihood enroll_patient_plot get_ordering logisticOnePara_GammaPriorLikelihood logisticOnePara_NormalPriorLikelihood logisticTwoPara_GammaPriorLikelihood logisticTwoPara_NormalPriorLikelihood maximization_phase ODC_plot patient_allocation_plot priorSkeletons randomization_phase rBin2Corr sample_plot SIM_phase_I_II tanh_ExpPriorLikelihood toxicity_est

Dependencies:cli colorspace cpp11 dplyr fansi farver generics ggforce ggplot2 glue gtable isoband labeling lattice lifecycle magrittr MASS Matrix mgcv munsell nlme pillar pkgconfig polyclip R6 RColorBrewer Rcpp RcppEigen rlang scales systemfonts tibble tidyselect tweenr utf8 vctrs viridisLite withr

crm12Comb: R Package of Phase I/II Adaptive Design for Drug Combinations based on CRM Design

Junying Wang, Song Wu, Jie Yang

Rendered fromcrm12Comb.Rmdusingknitr::rmarkdownon Sep 17 2024.

Last update: 2024-09-17
Started: 2024-05-03

Help page	Topics
Title: Get 6 complete orderings for toxicity and efficacy for drug combinations	doseComb_to_mat
Efficacy estimation	efficacy_est
empiric model with gamma prior	empiric_GammaPriorLikelihood
empiric model with normal prior	empiric_NormalPriorLikelihood
Plot patient enrollment for single trial	enroll_patient_plot
Output dataset for examples given list of inputs	examples_results
Complete orderings for combinations of two drugs	get_ordering
one-parameter logistic model with gamma prior	logisticOnePara_GammaPriorLikelihood
one-parameter logistic model with normal prior	logisticOnePara_NormalPriorLikelihood
two-parameter logistic model with gamma prior	logisticTwoPara_GammaPriorLikelihood
two-parameter logistic model with normal prior	logisticTwoPara_NormalPriorLikelihood
Maximization phase	maximization_phase
Plot optimal combination dose selections	ODC_plot
Plot patient allocation for a single trial	patient_allocation_plot
Generate the skeletons of toxicity and efficacy	priorSkeletons
Adaptive randomization	randomization_phase
Generate correlated binary variables	rBin2Corr
Sample plot for a given output results	sample_plot
Single simulation of phase I/II adaptive design for drug combinations based on CRM design	SIM_phase_I_II
Title: Bayesian likelihood inference	tanh_ExpPriorLikelihood
Toxicity estimation	toxicity_est

Package: crm12Comb 0.1.7

crm12Comb: Phase I/II CRM Based Drug Combination Design

crm12Comb: R Package of Phase I/II Adaptive Design for Drug Combinations based on CRM Design

Citation

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)