Modular Approach to Dose Finding Clinical Trials


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Documentation for package ‘escalation’ version 0.1.1

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cohort Cohort numbers of evaluated patients.
continue Should this dose-finding experiment continue?
demand_n_at_dose Demand there are n patients at a dose before condisdering stopping.
dont_skip_doses Prevent skipping of doses.
doses_given Doses given to patients.
dose_indices Dose indices
empiric_tox_rate Observed toxicity rate at each dose.
enforce_three_plus_three Enforce that a trial path has followed the 3+3 method.
fit Fit a dose-finding model.
follow_path Follow a pre-determined dose administration path.
get_boin Get an object to fit the BOIN model using the BOIN package.
get_dfcrm Get an object to fit the CRM model using the dfcrm package.
get_three_plus_three Get an object to fit the 3+3 model.
mean_prob_tox Mean toxicity rate at each dose.
median_prob_tox Median toxicity rate at each dose.
model_frame Model data-frame.
num_doses Number of doses.
num_patients Number of patients evaluated.
num_tox Total number of toxicities seen.
n_at_dose Number of patients treated at each dose.
parse_phase1_outcomes Parse a string of phase I dose-finding outcomes to vector notation.
phase1_outcomes_to_cohorts Break a phase I outcome string into a list of cohort parts.
prob_administer Percentage of patients treated at each dose.
prob_tox_exceeds Probability that the toxicity rate exceeds some threshold.
prob_tox_quantile Quantile of the toxicity rate at each dose.
prob_tox_samples Get samples of the probability of toxicity.
recommended_dose Recommended dose for next patient or cohort.
selector Dose selector.
selector_factory Dose selector factory.
select_dose_by_cibp Select dose by the CIBP selection criterion.
stop_at_n Stop when there are n patients in total.
stop_when_n_at_dose Stop when there are n patients at a dose.
stop_when_too_toxic Stop when a dose is too toxic.
stop_when_tox_ci_covered Stop when uncertainty interval of prob tox is covered.
supports_sampling Does this selector support sampling of outcomes?
three_plus_three Fit the 3+3 model to some outcomes.
tox Binary toxicity outcomes.
tox_at_dose Number of toxicities seen at each dose.
tox_target Target toxicity rate