CRAN Package Check Results for Package MedianaDesigner

Last updated on 2024-04-17 02:49:17 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.13 110.00 467.25 577.25 NOTE
r-devel-linux-x86_64-debian-gcc 0.13 90.64 329.95 420.59 NOTE
r-devel-linux-x86_64-fedora-clang 0.13 684.85 NOTE
r-devel-linux-x86_64-fedora-gcc 0.13 735.78 NOTE
r-prerel-macos-arm64 0.13 189.00 NOTE
r-prerel-windows-x86_64 0.13 71.00 339.00 410.00 NOTE
r-patched-linux-x86_64 0.13 106.18 443.78 549.96 NOTE
r-release-linux-x86_64 0.13 95.67 446.07 541.74 OK
r-release-macos-arm64 0.13 170.00 NOTE
r-release-macos-x86_64 0.13 377.00 NOTE
r-release-windows-x86_64 0.13 96.00 469.00 565.00 OK
r-oldrel-macos-arm64 0.13 195.00 NOTE
r-oldrel-windows-x86_64 0.13 97.00 471.00 568.00 OK

Check Details

Version: 0.13
Check: Rd files
Result: NOTE checkRd: (-1) ADPopSel.Rd:17-23: Lost braces 17 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) ADPopSel.Rd:24: Lost braces 24 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) ADPopSel.Rd:25: Lost braces 25 | \item \code{sample_size}{: Integer vector with two elements defining the number of enrolled patients in the two trial arms (control and experimental treatment). Each element must be positive.} | ^ checkRd: (-1) ADPopSel.Rd:26: Lost braces 26 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) ADPopSel.Rd:27: Lost braces 27 | \item \code{control_sd}{: Numeric value defining the standard deviation of the primary endpoint in the control arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:28: Lost braces 28 | \item \code{treatment_mean}{: Numeric value defining the mean of the primary endpoint in the experimental treatment arm. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:29: Lost braces 29 | \item \code{treatment_sd}{: Numeric value defining the standard deviation of the primary endpoint in the experimental treatment arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:30: Lost braces 30 | \item \code{control_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the control arm. This value must be between 0 and 1. This parameter is required only with binary endpoints \cr (\code{endpoint_type="Binary"}).} | ^ checkRd: (-1) ADPopSel.Rd:31: Lost braces 31 | \item \code{treatment_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the experimental treatment arm. This value must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:32: Lost braces 32 | \item \code{control_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the control arm. This value must be positive. This parameter is required only with time-to-event endpoints (\code{endpoint_type="Time-to-event"}).} | ^ checkRd: (-1) ADPopSel.Rd:33: Lost braces 33 | \item \code{treatment_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the experimental treatment arm. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:34: Lost braces 34 | \item \code{info_frac}{: Numeric vector with three elements defining the information fractions at the first interim analysis, at the second interim analysis and at the final analysis. The first and second elements must be between 0 and 1, and the third element must be 1.} | ^ checkRd: (-1) ADPopSel.Rd:35: Lost braces 35 | \item \code{event_count}{: Numeric value defining the total number of events at the final analysis. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:36: Lost braces 36 | \item \code{futility_threshold}{: Numeric value defining the futility threshold for conditional power at the first interim analysis. This value must be positive.} | ^ checkRd: (-1) ADPopSel.Rd:37: Lost braces 37 | \item \code{influence}{: Numeric value defining the influence threshold for selecting the most promising population or populations at the second interim analysis. This value must be positive.} | ^ checkRd: (-1) ADPopSel.Rd:38: Lost braces 38 | \item \code{interaction}{: Numeric value defining the interaction threshold for selecting the most promising population or populations at the second interim analysis. This value must be greater than 1.} | ^ checkRd: (-1) ADPopSel.Rd:39: Lost braces 39 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. With normally distributed endpoints and binary endpoints, a uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the interim and final analyses. With time-to-event endpoints, the time to patient dropout is assumed to follow an exponential distribution and this parameter defines the annual dropout rate. This value must be between 0 and 1.} | ^ checkRd: (-1) ADPopSel.Rd:40: Lost braces 40 | \item \code{enrollment_period}{: Numeric value defining the length of the patient enrollment period. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADPopSel.Rd:41: Lost braces 41 | \item \code{enrollment_parameter}{: Numeric value defining the median enrollment time. The patient enrollment process is assumed to be governed by a truncated exponential distribution and this parameter defines the time point by which 50\% of the patients are enrolled into the trial. This value must be between 0 and the length of the patient enrollment period. This parameter is required only with time-to-event endpoints.}. | ^ checkRd: (-1) ADPopSel.Rd:42: Lost braces 42 | \item \code{alpha}{: Numeric value defining the overall one-sided Type I error rate. The default value is 0.025.} | ^ checkRd: (-1) ADPopSel.Rd:43: Lost braces 43 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) ADPopSel.Rd:44: Lost braces 44 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) ADPopSel.Rd:45: Lost braces 45 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) ADRand.Rd:19-23: Lost braces 19 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) ADRand.Rd:24: Lost braces 24 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) ADRand.Rd:25: Lost braces 25 | \item \code{dose_levels}{: Integer vector defining the dose levels in the trial (0 corresponds to the placebo group). Each element must be non-negative.} | ^ checkRd: (-1) ADRand.Rd:26: Lost braces 26 | \item \code{stage_sample_size}{: Integer vector defining the total number of patients enrolled in each stage. Each element must be positive.} | ^ checkRd: (-1) ADRand.Rd:27: Lost braces 27 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the placebo arm. } | ^ checkRd: (-1) ADRand.Rd:28: Lost braces 28 | \item \code{control_sd}{: Numeric value defining the standard deviation of the primary endpoint in the placebo arm. This value must be positive. } | ^ checkRd: (-1) ADRand.Rd:29: Lost braces 29 | \item \code{treatment_mean}{: Numeric vector defining the mean of the primary endpoint in each dosing arm.} | ^ checkRd: (-1) ADRand.Rd:30: Lost braces 30 | \item \code{treatment_sd}{: Numeric vector defining the standard deviation of the primary endpoint in each dosing arm.} | ^ checkRd: (-1) ADRand.Rd:31: Lost braces 31 | \item \code{treatment_period}{: Numeric value defining the length of the treatment period in the trial.} | ^ checkRd: (-1) ADRand.Rd:32: Lost braces 32 | \item \code{ratio_placebo}{: Numeric value defining the fixed randomization ratio in the placebo arm. This value must be between 0 and 1.} | ^ checkRd: (-1) ADRand.Rd:33: Lost braces 33 | \item \code{balance}{: Numeric value defining the degree of balance for adaptive randomization. This value must be between 0 and 3.} | ^ checkRd: (-1) ADRand.Rd:34: Lost braces 34 | \item \code{delta}{: Numeric value defining the threshold for a clinically meaningful improvement over placebo.} | ^ checkRd: (-1) ADRand.Rd:35: Lost braces 35 | \item \code{exponential_model_parameter}{: Numeric value defining the non-linear parameter (delta) for the exponential dose-response model used in the MCPMod method. This value must be positive.} | ^ checkRd: (-1) ADRand.Rd:36: Lost braces 36 | \item \code{emax_model_parameter}{: Numeric value defining the non-linear parameter (ED50) for the Emax dose-response model used in the MCPMod method. This value must be positive.} | ^ checkRd: (-1) ADRand.Rd:37: Lost braces 37 | \item \code{logistic_model_parameters}{: Numeric vector with two elements defining the non-linear parameters (ED50 and delta) for the logistic dose-response model used in the MCPMod method. The values must be positive.} | ^ checkRd: (-1) ADRand.Rd:38: Lost braces 38 | \item \code{enrollment_period}{: Numeric value defining the length of the patient enrollment period. This value must be positive. } | ^ checkRd: (-1) ADRand.Rd:39: Lost braces 39 | \item \code{enrollment_parameter}{: Numeric value defining the median enrollment time. The patient enrollment process is assumed to be governed by a truncated exponential distribution and this parameter defines the time point by which 50\% of the patients are enrolled into the trial. This value must be between 0 and the length of the patient enrollment period.} | ^ checkRd: (-1) ADRand.Rd:40: Lost braces 40 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. A uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the interim and final analyses. This value must be between 0 and 1.} | ^ checkRd: (-1) ADRand.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) ADRand.Rd:42: Lost braces 42 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) ADRand.Rd:43: Lost braces 43 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) ADRand.Rd:44: Lost braces 44 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) ADSSMod.Rd:17-23: Lost braces 17 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) ADSSMod.Rd:24: Lost braces 24 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) ADSSMod.Rd:25: Lost braces 25 | \item \code{sample_size}{: Integer vector with two elements defining the number of enrolled patients in the two trial arms (control and experimental treatment). Each element must be positive.} | ^ checkRd: (-1) ADSSMod.Rd:26: Lost braces 26 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) ADSSMod.Rd:27: Lost braces 27 | \item \code{control_sd}{: Numeric value defining the standard deviation of the primary endpoint in the control arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:28: Lost braces 28 | \item \code{treatment_mean}{: Numeric value defining the mean of the primary endpoint in the experimental treatment arm. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:29: Lost braces 29 | \item \code{treatment_sd}{: Numeric value defining the standard deviation of the primary endpoint in the experimental treatment arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:30: Lost braces 30 | \item \code{control_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the control arm. This value must be between 0 and 1. This parameter is required only with binary endpoints \cr (\code{endpoint_type="Binary"}).} | ^ checkRd: (-1) ADSSMod.Rd:31: Lost braces 31 | \item \code{treatment_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the experimental treatment arm. This value must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:32: Lost braces 32 | \item \code{control_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the control arm. This value must be positive. This parameter is required only with time-to-event endpoints (\code{endpoint_type="Time-to-event"}).} | ^ checkRd: (-1) ADSSMod.Rd:33: Lost braces 33 | \item \code{treatment_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the experimental treatment arm. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:34: Lost braces 34 | \item \code{info_frac}{: Numeric vector with four elements defining the information fractions at the first interim analysis, at the second interim analysis, at the final analysis before sample size/event count adjustment and at the final analysis after sample size/event count adjustment adjustment. The first and second elements must be between 0 and 1, the third element must be 1 and the fourth element must be greater than 1.} | ^ checkRd: (-1) ADSSMod.Rd:35: Lost braces 35 | \item \code{event_count}{: Numeric value defining the total number of events at the final analysis before event count adjustment. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:36: Lost braces 36 | \item \code{futility_threshold}{: Numeric value defining the futility threshold for conditional power at the first interim analysis. This value must be positive.} | ^ checkRd: (-1) ADSSMod.Rd:37: Lost braces 37 | \item \code{promising_interval}{: Numeric vector with two elements defining the promising interval for conditional power at the second interim analysis. Each element must be between 0 and 1.} | ^ checkRd: (-1) ADSSMod.Rd:38: Lost braces 38 | \item \code{target_power}{: Numeric value defining the target conditional power for increasing the number of patients or events at the second interim analysis. This value must be between 0 and 1.} | ^ checkRd: (-1) ADSSMod.Rd:39: Lost braces 39 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. With normally distributed endpoints and binary endpoints, a uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the interim and final analyses. With time-to-event endpoints, the time to patient dropout is assumed to follow an exponential distribution and this parameter defines the annual dropout rate. This value must be between 0 and 1.} | ^ checkRd: (-1) ADSSMod.Rd:40: Lost braces 40 | \item \code{enrollment_period}{: Numeric value defining the length of the patient enrollment period. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADSSMod.Rd:41: Lost braces 41 | \item \code{enrollment_parameter}{: Numeric value defining the median enrollment time. The patient enrollment process is assumed to be governed by a truncated exponential distribution and this parameter defines the time point by which 50\% of the patients are enrolled into the trial. This value must be between 0 and the length of the patient enrollment period. This parameter is required only with time-to-event endpoints.}. | ^ checkRd: (-1) ADSSMod.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) ADSSMod.Rd:43: Lost braces 43 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) ADSSMod.Rd:44: Lost braces 44 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) ADSSMod.Rd:45: Lost braces 45 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) ADTreatSel.Rd:17-23: Lost braces 17 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) ADTreatSel.Rd:24: Lost braces 24 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) ADTreatSel.Rd:25: Lost braces 25 | \item \code{sample_size}{: Integer vector defining the number of enrolled patients in the trial arms (control and multiple experimental treatments). Each element must be positive.} | ^ checkRd: (-1) ADTreatSel.Rd:26: Lost braces 26 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) ADTreatSel.Rd:27: Lost braces 27 | \item \code{control_sd}{: Numeric value defining the standard deviation of the primary endpoint in the control arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:28: Lost braces 28 | \item \code{treatment_mean}{: Numeric vector defining the means of the primary endpoint in the experimental treatment arms. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:29: Lost braces 29 | \item \code{treatment_sd}{: Numeric vector defining the standard deviations of the primary endpoint in the experimental treatment arms. Each element must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:30: Lost braces 30 | \item \code{control_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the control arm. This value must be between 0 and 1. This parameter is required only with binary endpoints \cr (\code{endpoint_type="Binary"}).} | ^ checkRd: (-1) ADTreatSel.Rd:31: Lost braces 31 | \item \code{treatment_rate}{: Numeric vector defining the proportions or response rates for the primary endpoint in the experimental treatment arms. Each element must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:32: Lost braces 32 | \item \code{control_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the control arm. This value must be positive. This parameter is required only with time-to-event endpoints (\code{endpoint_type="Time-to-event"}).} | ^ checkRd: (-1) ADTreatSel.Rd:33: Lost braces 33 | \item \code{treatment_time}{: Numeric vector defining the median times, e.g., the median survival times, for the exponentially distributed primary endpoint in the experimental treatment arms. Each element must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:34: Lost braces 34 | \item \code{info_frac}{: Numeric vector with three elements defining the information fractions at the first interim analysis, at the second interim analysis and at the final analysis. The first and second elements must be between 0 and 1, and the third element must be 1.} | ^ checkRd: (-1) ADTreatSel.Rd:35: Lost braces 35 | \item \code{event_count}{: Numeric value defining the total number of events at the final analysis. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:36: Lost braces 36 | \item \code{futility_threshold}{: Numeric value defining the futility threshold for conditional power at the first interim analysis. This value must be positive.} | ^ checkRd: (-1) ADTreatSel.Rd:37: Lost braces 37 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. With normally distributed endpoints and binary endpoints, a uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the interim and final analyses. With time-to-event endpoints, the time to patient dropout is assumed to follow an exponential distribution and this parameter defines the annual dropout rate. This value must be between 0 and 1.} | ^ checkRd: (-1) ADTreatSel.Rd:38: Lost braces 38 | \item \code{enrollment_period}{: Numeric value defining the length of the patient enrollment period. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) ADTreatSel.Rd:39: Lost braces 39 | \item \code{enrollment_parameter}{: Numeric value defining the median enrollment time. The patient enrollment process is assumed to be governed by a truncated exponential distribution and this parameter defines the time point by which 50\% of the patients are enrolled into the trial. This value must be between 0 and the length of the patient enrollment period. This parameter is required only with time-to-event endpoints.}. | ^ checkRd: (-1) ADTreatSel.Rd:40: Lost braces 40 | \item \code{treatment_count}{: Integer value defining the number of treatments to be selected at the second interim analysis. This value must range between 1 and the total number of treatments in the trial.} | ^ checkRd: (-1) ADTreatSel.Rd:41-51: Lost braces 41 | \item \code{mult_test}{: Character value defining the multiple testing procedure to be used in the trial. Possible values: | ^ checkRd: (-1) ADTreatSel.Rd:47: Lost braces 47 | \item \code{alpha}{: Numeric value defining the overall one-sided Type I error rate. The default value is 0.025.} | ^ checkRd: (-1) ADTreatSel.Rd:48: Lost braces 48 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) ADTreatSel.Rd:49: Lost braces 49 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) ADTreatSel.Rd:50: Lost braces 50 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) ClustRand.Rd:20-25: Lost braces 20 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) ClustRand.Rd:26: Lost braces 26 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) ClustRand.Rd:27: Lost braces 27 | \item \code{sample_size}{: Integer vector defining the number of completers in the trial arms (control arm and several treatment arms). Completers are defined as patients who complete the trial and are included in the final analysis. Each element must be positive.} | ^ checkRd: (-1) ClustRand.Rd:28-33: Lost braces 28 | \item \code{method_type}{: Character value defining the data analysis method. Possible values: | ^ checkRd: (-1) ClustRand.Rd:34-39: Lost braces 34 | \item \code{cluster_scheme}{: Character value defining the cluster scheme. Possible values: | ^ checkRd: (-1) ClustRand.Rd:40: Lost braces 40 | \item \code{control_cluster_size}{: Numeric vector defining the number of cluster sizes in the control arm. This parameter is required only if the cluster sizes are pre-defined (\code{cluster_scheme="Fixed"}).} | ^ checkRd: (-1) ClustRand.Rd:41: Lost braces 41 | \item \code{treatment_cluster_size}{: Numeric matrix defining the number of cluster sizes in the treatment arms (each row corresponds to a treatment arm). This parameter is required only if the cluster sizes are pre-defined.} | ^ checkRd: (-1) ClustRand.Rd:42: Lost braces 42 | \item \code{control_cluster_proportion}{: Numeric vector of relative cluster sizes in the control arm. The cluster membership is determined using a generalized Bernoulli distribution based on the relative cluster sizes. Each element must be between 0 and 1. This parameter is required only if the cluster sizes are random (\code{cluster_scheme="Random"}).} | ^ checkRd: (-1) ClustRand.Rd:43: Lost braces 43 | \item \code{treatment_cluster_proportion}{: Numeric matrix of relative cluster sizes in the treatment arms (each row corresponds to a treatment arm). The cluster membership in each treatment arm is determined using a generalized Bernoulli distribution based on the relative cluster sizes. Each element must be between 0 and 1. This parameter is required only if the cluster sizes are random.} | ^ checkRd: (-1) ClustRand.Rd:44: Lost braces 44 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) ClustRand.Rd:45: Lost braces 45 | \item \code{treatment_mean}{: Numeric vector defining the means of the primary endpoint in the treatment arms. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ClustRand.Rd:46: Lost braces 46 | \item \code{control_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the control arm. This value must be between 0 and 1. This parameter is required only with binary endpoints \cr (\code{endpoint_type="Binary"}).} | ^ checkRd: (-1) ClustRand.Rd:47: Lost braces 47 | \item \code{treatment_rate}{: Numeric vector defining the proportion or response rate for the primary endpoint in the treatment arms. Each element must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) ClustRand.Rd:48: Lost braces 48 | \item \code{control_icc}{: Numeric value defining the intra-cluster correlation coefficient in the control arm. This value must be between 0 and 1.} | ^ checkRd: (-1) ClustRand.Rd:49: Lost braces 49 | \item \code{control_between_cluster_sd}{: Numeric value defining the between-cluster standard deviation in the control arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ClustRand.Rd:50: Lost braces 50 | \item \code{treatment_icc}{: Numeric vector defining the intra-cluster correlation coefficients in the treatment arms. Each element must be between 0 and 1.} | ^ checkRd: (-1) ClustRand.Rd:51: Lost braces 51 | \item \code{treatment_between_cluster_sd}{: Numeric vector defining the between-cluster standard deviation in the treatment arms. Each element must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) ClustRand.Rd:52: Lost braces 52 | \item \code{descriptive_statistics}{: Logical value requesting the computation of descriptive statistics (arm-specific effects and cluster sizes if the cluster sizes are random) from each simulation run. The default value is FALSE.} | ^ checkRd: (-1) ClustRand.Rd:53: Lost braces in \itemize; meant \describe ? checkRd: (-1) ClustRand.Rd:54: Lost braces 54 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) ClustRand.Rd:55: Lost braces 55 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) ClustRand.Rd:56: Lost braces 56 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) EventPred.Rd:18-26: Lost braces 18 | \item \code{data_set}{: Data frame that contains blinded patient enrollment, event and dropout data at the interim analysis with a single record per patient. The following : | ^ checkRd: (-1) EventPred.Rd:20: Lost braces 20 | \item \code{enrollment}{: Time of the patient's enrollment.} | ^ checkRd: (-1) EventPred.Rd:21: Lost braces 21 | \item \code{time}{: Time of the patient's death or last contact if the event is censored relative to the patient's enrollment.} | ^ checkRd: (-1) EventPred.Rd:22: Lost braces 22 | \item \code{event}{: Event indicator (1 if the patient died and 0 otherwise).} | ^ checkRd: (-1) EventPred.Rd:23: Lost braces 23 | \item \code{dropout}{: Patient dropout indicator (1 if the patient dropped out of the trial/was lost to follow up and 0 otherwise).} | ^ checkRd: (-1) EventPred.Rd:27: Lost braces 27 | \item \code{time_points}{: Numeric vector defining the future time points for computing event predictions. Each elements must be greater than the latest time point in the \code{data_set}.} | ^ checkRd: (-1) EventPred.Rd:28: Lost braces 28 | \item \code{event_prior_distribution}{: Numeric vector with two elements defining the shape and rate parameters of the prior gamma distribution for the event hazard rate. Each element must be positive. The parameters could be computed using the \code{\link{EventPredPriorDistribution}} function.} | ^ checkRd: (-1) EventPred.Rd:29: Lost braces 29 | \item \code{dropout_prior_distribution}{: Numeric vector with two elements defining the shape and rate parameters of the prior gamma distribution for the patient dropout hazard rate. Each element must be positive. The parameters could be computed using the \code{\link{EventPredPriorDistribution}} function.} | ^ checkRd: (-1) EventPred.Rd:30: Lost braces 30 | \item \code{enrollment_prior_distribution}{: Numeric vector with two elements defining the shape and rate parameters of the prior gamma distribution for the patient enrollment rate. Each element must be positive. The parameters could be computed using the \code{\link{EventPredPriorDistribution}} function.} | ^ checkRd: (-1) EventPred.Rd:31: Lost braces 31 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) EventPred.Rd:32: Lost braces 32 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) EventPred.Rd:33: Lost braces 33 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) FutRule.Rd:17-23: Lost braces 17 | \item \code{endpoint_type}{: Character value defining the primary endpoint's type. Possible values: | ^ checkRd: (-1) FutRule.Rd:24: Lost braces 24 | \item \code{direction}{: Character value defining the direction of favorable outcome. Possible values: \code{"Higher"} (a higher value of the endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of the endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) FutRule.Rd:25: Lost braces 25 | \item \code{sample_size}{: Integer vector defining the number of enrolled patients in the trial arms (control and multiple experimental treatments). Each element must be positive.} | ^ checkRd: (-1) FutRule.Rd:26: Lost braces 26 | \item \code{control_mean}{: Numeric value defining the mean of the primary endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) FutRule.Rd:27: Lost braces 27 | \item \code{control_sd}{: Numeric value defining the standard deviation of the primary endpoint in the control arm. This value must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) FutRule.Rd:28: Lost braces 28 | \item \code{treatment_mean}{: Numeric vector defining the means of the primary endpoint in the experimental treatment arms. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) FutRule.Rd:29: Lost braces 29 | \item \code{treatment_sd}{: Numeric vector defining the standard deviations of the primary endpoint in the experimental treatment arms. Each element must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) FutRule.Rd:30: Lost braces 30 | \item \code{control_rate}{: Numeric value defining the proportion or response rate for the primary endpoint in the control arm. This value must be between 0 and 1. This parameter is required only with binary endpoints \cr (\code{endpoint_type="Binary"}).} | ^ checkRd: (-1) FutRule.Rd:31: Lost braces 31 | \item \code{treatment_rate}{: Numeric vector defining the proportions or response rates for the primary endpoint in the experimental treatment arms. Each element must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) FutRule.Rd:32: Lost braces 32 | \item \code{control_time}{: Numeric value defining the median time, e.g., the median survival time, for the exponentially distributed primary endpoint in the control arm. This value must be positive. This parameter is required only with time-to-event endpoints (\code{endpoint_type="Time-to-event"}).} | ^ checkRd: (-1) FutRule.Rd:33: Lost braces 33 | \item \code{treatment_time}{: Numeric vector defining the median times, e.g., the median survival times, for the exponentially distributed primary endpoint in the experimental treatment arms. Each element must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) FutRule.Rd:34: Lost braces 34 | \item \code{info_frac}{: Numeric value defining the information fraction at the interim analysis. This value must be between 0 and 1.} | ^ checkRd: (-1) FutRule.Rd:35: Lost braces 35 | \item \code{event_count}{: Numeric value defining the total number of events at the final analysis. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) FutRule.Rd:36: Lost braces 36 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. With normally distributed endpoints and binary endpoints, a uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the interim and final analyses. With time-to-event endpoints, the time to patient dropout is assumed to follow an exponential distribution and this parameter defines the annual dropout rate. This value must be between 0 and 1.} | ^ checkRd: (-1) FutRule.Rd:37: Lost braces 37 | \item \code{enrollment_period}{: Numeric value defining the length of the patient enrollment period. This value must be positive. This parameter is required only with time-to-event endpoints.} | ^ checkRd: (-1) FutRule.Rd:38: Lost braces 38 | \item \code{enrollment_parameter}{: Numeric value defining the median enrollment time. The patient enrollment process is assumed to be governed by a truncated exponential distribution and this parameter defines the time point by which 50\% of the patients are enrolled into the trial. This value must be between 0 and the length of the patient enrollment period. This parameter is required only with time-to-event endpoints.}. | ^ checkRd: (-1) FutRule.Rd:39: Lost braces 39 | \item \code{alpha}{: Numeric value defining the overall one-sided Type I error rate. The default value is 0.025.} | ^ checkRd: (-1) FutRule.Rd:40: Lost braces 40 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) FutRule.Rd:41: Lost braces 41 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) FutRule.Rd:42: Lost braces 42 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ checkRd: (-1) MedianaDesigner-package.Rd:103: Lost braces 103 | Hayes, R.J., Moulton, L.H. (2009). emph{Cluster Randomised Trials: A Practical Approach}. Chapman and Hall/CRC. | ^ checkRd: (-1) MultAdj.Rd:23-28: Lost braces 23 | \item \code{endpoint_type}{: Character value defining the common type of trial endpoints. Possible values: | ^ checkRd: (-1) MultAdj.Rd:29: Lost braces 29 | \item \code{direction}{: Character value defining the common direction of favorable outcome for all endpoints. Possible values: \code{"Higher"} (a higher value of each endpoint indicates a more favorable outcome) and \code{"Lower"} (a lower value of each endpoint indicates a more favorable outcome).} | ^ checkRd: (-1) MultAdj.Rd:30: Lost braces 30 | \item \code{n_comparisons}{: Integer value defining the number of dose-control comparisons in the trial. This value must be positive.} | ^ checkRd: (-1) MultAdj.Rd:31: Lost braces 31 | \item \code{n_endpoints}{: Integer value defining the number of endpoints in the trial. This value must be positive. Either \code{n_comparisons} or \code{n_endpoints} must be greater than 1.} | ^ checkRd: (-1) MultAdj.Rd:32: Lost braces 32 | \item \code{sample_size}{: Integer vector defining the number of enrolled patients in each trial arm (control and experimental treatments). Each element must be positive.} | ^ checkRd: (-1) MultAdj.Rd:33: Lost braces 33 | \item \code{control_mean}{: Numeric vector defining the mean of each endpoint in the control arm. This parameter is required only with normally distributed endpoints (\code{endpoint_type="Normal"}).} | ^ checkRd: (-1) MultAdj.Rd:34: Lost braces 34 | \item \code{control_sd}{: Numeric vector defining the standard deviation of each endpoint in the control arm. Each element must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) MultAdj.Rd:35: Lost braces 35 | \item \code{treatment_mean}{: Numeric vector or matrix defining the mean of each endpoint in each experimental treatment arm. In clinical trials with several endpoints and several dose-placebo comparisons, the rows corresponds to the endpoints and the columns corresponds to the treatment-control comparisons. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) MultAdj.Rd:36: Lost braces 36 | \item \code{treatment_sd}{: Numeric vector or matrix defining the standard deviation of each endpoint in each experimental treatment arm. In clinical trials with several endpoints and several dose-placebo comparisons, the rows corresponds to the endpoints and the columns corresponds to the treatment-control comparisons. Each element must be positive. This parameter is required only with normally distributed endpoints.} | ^ checkRd: (-1) MultAdj.Rd:37: Lost braces 37 | \item \code{control_rate}{: Numeric vector defining the proportion or response rate for each endpoint in the control arm. Each element must be between 0 and 1. This parameter is required only with binary endpoints (\code{endpoint_type=} \code{"Binary"}).} | ^ checkRd: (-1) MultAdj.Rd:38: Lost braces 38 | \item \code{treatment_rate}{: Numeric vector or matrix defining the proportion or response rate for each endpoint in each experimental treatment arm. In clinical trials with several endpoints and several dose-placebo comparisons, the rows corresponds to the endpoints and the columns corresponds to the treatment-control comparisons. Each element must be between 0 and 1. This parameter is required only with binary endpoints.} | ^ checkRd: (-1) MultAdj.Rd:39: Lost braces 39 | \item \code{endpoint_correlation}{: Numeric matrix defining the pairwise correlations among the endpoint-specific test statistics. Each element must be between 0 and 1 and the matrix must be positive definite. This parameter is required only in trials with multiple endpoints.} | ^ checkRd: (-1) MultAdj.Rd:40-51: Lost braces 40 | \item \code{mult_test}{: Character value defining the multiple testing procedure, global testing procedure or gatekeeping procedure. Possible values: | ^ checkRd: (-1) MultAdj.Rd:52: Lost braces 52 | \item \code{weights}{: Numeric vector defining the initial hypothesis weights. Each element must be between 0 and 1. This parameter is required only with multiple testing procedures.} | ^ checkRd: (-1) MultAdj.Rd:53: Lost braces 53 | \item \code{transition}{: Numeric matrix defining the hypothesis transition parameters. Each element must be between 0 and 1 and the sum of elements in each row must be less than or equal to 1. This parameter is required only with the chain multiple testing procedure.} | ^ checkRd: (-1) MultAdj.Rd:54: Lost braces 54 | \item \code{sequence}{: Integer vector defining the hypothesis testing sequence. This parameter is required only with the fixed-sequence multiple testing procedures.} | ^ checkRd: (-1) MultAdj.Rd:55-62: Lost braces 55 | \item \code{mult_method}{: Character value defining the mixture method for the gatekeeping procedure. Possible values: | ^ checkRd: (-1) MultAdj.Rd:63: Lost braces 63 | \item \code{mult_test_gamma}{: Numeric vector defining the truncation parameter for each endpoint-specific family of hypotheses. The vector's length must be equal to the number of endpoints. Each element must be between 0 and 1, the last element may be equal to 1 whereas the other elements must be strictly less than 1. This parameter is required only with gatekeeping procedures.} | ^ checkRd: (-1) MultAdj.Rd:64: Lost braces 64 | \item \code{dropout_rate}{: Numeric value defining the patient dropout rate. A uniform patient dropout process is assumed and thus this parameter defines the fraction of patients that will be excluded from the analysis. This value must be between 0 and 1.} | ^ checkRd: (-1) MultAdj.Rd:65: Lost braces in \itemize; meant \describe ? checkRd: (-1) MultAdj.Rd:66: Lost braces 66 | \item \code{random_seed}{: Integer value defining the random number generator seed. The default value is 49283.} | ^ checkRd: (-1) MultAdj.Rd:67: Lost braces 67 | \item \code{nsims}{: Integer value defining the number of simulation runs.} | ^ checkRd: (-1) MultAdj.Rd:68: Lost braces 68 | \item \code{ncores}{: Integer value defining the number of cores for parallel calculations. The number of cores cannot exceed the maximum available number of cores. The default value is 1.} | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-prerel-macos-arm64, r-prerel-windows-x86_64, r-patched-linux-x86_64

Version: 0.13
Check: installed package size
Result: NOTE installed size is 19.0Mb sub-directories of 1Mb or more: libs 18.0Mb Flavors: r-prerel-macos-arm64, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64

Version: 0.13
Check: R code for possible problems
Result: NOTE ADPopSel: no visible global function definition for ‘%dorng%’ ADRand: no visible global function definition for ‘%dorng%’ ADSSMod: no visible global function definition for ‘%dorng%’ ADTreatSel: no visible global function definition for ‘%dorng%’ ClustRand: no visible global function definition for ‘%dorng%’ EventPred: no visible global function definition for ‘%dorng%’ FutRuleNCores: no visible global function definition for ‘%dorng%’ MultAdj1NCores: no visible global function definition for ‘%dorng%’ MultAdj2NCores: no visible global function definition for ‘%dorng%’ MultAdj3NCores: no visible global function definition for ‘%dorng%’ Undefined global functions or variables: %dorng% Flavors: r-prerel-macos-arm64, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64