Other packages > Find by keyword >

escalation  

A Modular Approach to Dose-Finding Clinical Trials
View on CRAN: Click here


Download and install escalation package within the R console
Install from CRAN:
install.packages("escalation")

Install from Github:
library("remotes")
install_github("cran/escalation")

Install by package version:
library("remotes")
install_version("escalation", "0.2.3")



Attach the package and use:
library("escalation")
Maintained by
Kristian Brock
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-03-08
Latest Update: 2024-06-27
Description:
Methods for working with dose-finding clinical trials. We provide implementations of many dose-finding clinical trial designs, including the continual reassessment method (CRM) by O'Quigley et al. (1990) , the toxicity probability interval (TPI) design by Ji et al. (2007) , the modified TPI (mTPI) design by Ji et al. (2010) , the Bayesian optimal interval design (BOIN) by Liu & Yuan (2015) , EffTox by Thall & Cook (2004) ; the design of Wages & Tait (2015) , and the 3+3 described by Korn et al. (1994) . All designs are implemented with a common interface. We also offer optional additional classes to tailor the behaviour of all designs, including avoiding skipping doses, stopping after n patients have been treated at the recommended dose, stopping when a toxicity condition is met, or demanding that n patients are treated before stopping is allowed. By daisy-chaining together these classes using the pipe operator from 'magrittr', it is simple to tailor the behaviour of a dose-finding design so it behaves how the trialist wants. Having provided a flexible interface for specifying designs, we then provide functions to run simulations and calculate dose-paths for future cohorts of patients.
How to cite:
Kristian Brock (2020). escalation: A Modular Approach to Dose-Finding Clinical Trials. R package version 0.2.3, https://cran.r-project.org/web/packages/escalation. Accessed 29 Jun. 2026.
Previous versions and publish date:
0.1.1 (2020-03-08 18:10), 0.1.2 (2020-04-14 17:10), 0.1.3 (2020-05-13 01:40), 0.1.4 (2020-10-18 23:40), 0.1.5 (2023-05-29 20:10), 0.1.8 (2024-02-23 17:50), 0.1.9 (2024-05-22 19:10), 0.1.10 (2024-06-27 13:50)
Other packages that cited escalation R package
View escalation citation profile
Other R packages that escalation depends, imports, suggests or enhances
Complete documentation for escalation
Functions, R codes and Examples using the escalation R package
Some associated functions: as_tibble.dose_paths . calculate_probabilities . cohort . cohorts_of_n . continue . crystallised_dose_paths . demand_n_at_dose . dont_skip_doses . dose_admissible . dose_indices . dose_paths . dose_paths_function . doses_given . eff . eff_at_dose . eff_limit . empiric_eff_rate . empiric_tox_rate . enforce_three_plus_three . escalation-package . fit . follow_path . get_boin . get_dfcrm . get_dose_paths . get_empiric_crm_skeleton_weights . get_mtpi . get_mtpi2 . get_random_selector . get_three_plus_three . get_tpi . get_trialr_crm . get_trialr_efftox . get_trialr_nbg . get_wages_and_tait . graph_paths . is_randomising . mean_prob_eff . mean_prob_tox . median_prob_eff . median_prob_tox . model_frame . n_at_dose . n_at_recommended_dose . num_cohort_outcomes . num_dose_path_nodes . num_doses . num_eff . num_patients . num_tox . parse_phase1_2_outcomes . parse_phase1_outcomes . phase1_2_outcomes_to_cohorts . phase1_outcomes_to_cohorts . prob_administer . prob_eff_quantile . prob_recommend . prob_tox_exceeds . prob_tox_quantile . prob_tox_samples . recommended_dose . select_boin_mtd . select_dose_by_cibp . selector . selector_factory . simulate_trials . simulation_function . simulations . spread_paths . stop_at_n . stop_when_n_at_dose . stop_when_too_toxic . stop_when_tox_ci_covered . supports_sampling . three_plus_three . tox . tox_at_dose . tox_limit . tox_target . trial_duration . try_rescue_dose . 
Some associated R codes: boin_selector.R . calculate_probabilities.R . crystallised_dose_paths.R . demand_n_at_dose.R . derived_dose_selector.R . derived_dose_selector_factory.R . dfcrm_selector.R . dont_skip_doses.R . dose_finding_path_node.R . dose_paths.R . eff_tox_selector.R . eff_tox_selector_factory.R . enforce_three_plus_three.R . escalation-package.R . follow_path.R . get_dose_paths.R . get_empiric_crm_skeleton_weights.R . graph_paths.R . helpers.R . interface.R . mtpi2_selector.R . mtpi_selector.R . num_cohort_outcomes.R . num_dose_path_nodes.R . parse_phase1_2_outcomes.R . parse_phase1_outcomes.R . phase1_2_dose_paths.R . phase1_2_outcomes_to_cohorts.R . phase1_2_sim.R . phase1_dose_paths.R . phase1_outcomes_to_cohorts.R . phase1_sim.R . random_dose_selector.R . select_boin_mtd.R . select_dose_by_cibp.R . selector.R . selector_factory.R . simulate_trials.R . simulations.R . spread_paths.R . stop_at_n_selector.R . stop_when_n_at_dose_selector.R . stop_when_too_toxic.R . stop_when_tox_ci_covered.R . three_plus_three.R . three_plus_three_selector.R . tox_selector_factory.R . tpi_selector.R . trialr_crm_selector.R . trialr_efftox_selector.R . trialr_nbg_selector.R . try_rescue_dose.R . wages_tait_selector.R .  Full escalation package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

SurvDisc  
Discrete Time Survival and Longitudinal Data Analysis
Various functions for discrete time survival analysis and longitudinal analysis. SIMEX method for co ...
Download / Learn more Package Citations See dependency  
sprintr  
Sparse Reluctant Interaction Modeling
An implementation of a computationally efficient method to fit large-scale interaction models based ...
Download / Learn more Package Citations See dependency  
Maintainer: Guo Yu (view profile)
nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
ollg  
Computes some Measures of OLL-G Family of Distributions
Computes the pdf, cdf, quantile function, hazard function and generating random numbers for Odd log- ...
Download / Learn more Package Citations See dependency  
mappoly  
Genetic Linkage Maps in Autopolyploids
Construction of genetic maps in autopolyploid full-sib populations. Uses pairwise recombination fra ...
Download / Learn more Package Citations See dependency  
cogmapr  
Cognitive Mapping Tools Based on Coding of Textual Sources
Functions for building cognitive maps based on qualitative data. Inputs are textual sources (article ...
Download / Learn more Package Citations See dependency  

27,653

R Packages

236,180

Dependencies

73,487

Author Associations

27,536

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA