* using log directory ‘/srv/hornik/tmp/CRAN/EQUAL.Rcheck’ * using R Under development (unstable) (2024-08-19 r87028) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 18.1.8 (9) Debian flang-new version 18.1.8 (9) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘EQUAL/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘EQUAL’ version ‘0.1.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/3s] NOTE Maintainer: ‘Kurinchi Gurusamy ’ New submission * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'boot', 'cowplot', 'coxme', 'DescTools', 'forecast', 'ggcorrplot', 'ggplot2', 'ggsurvfit', 'irr', 'lme4', 'lmerTest', 'lmtest', 'MASS', 'mclogit', 'MuMIn', 'nnet', 'ordinal', 'rstatix', 'pROC', 'pwr', 'shiny', 'stringr', 'survival', 'ThresholdROC', 'tseries', 'urca', 'vars', 'viridisLite', 'zip' Adding so many packages to the search path is excessive and importing selectively is preferable. * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking serialization versions ... OK * checking whether package ‘EQUAL’ can be installed ... [16s/16s] OK * checking package directory ... OK * checking for future file timestamps ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [3s/3s] OK * checking whether the package can be loaded with stated dependencies ... [3s/3s] OK * checking whether the package can be unloaded cleanly ... [3s/3s] OK * checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK * checking whether the namespace can be unloaded cleanly ... [3s/3s] OK * checking loading without being on the library search path ... [3s/3s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... NOTE Packages in Depends field not imported from: ‘lmerTest’ ‘rstatix’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [27s/27s] NOTE function.Check_Distribution: no visible binding for global variable ‘Predefined_lists’ function.Compare_Groups: no visible binding for global variable ‘Predefined_lists’ function.Compare_Groups: no visible binding for global variable ‘Categories’ function.Compare_Groups: no visible binding for global variable ‘Average’ function.Compare_Sample_Pop_Means: no visible binding for global variable ‘Predefined_lists’ function.Correlation: no visible binding for global variable ‘Predefined_lists’ function.Create_Plots: no visible binding for global variable ‘Predefined_lists’ function.Diagnostic_Accuracy_Primary: no visible binding for global variable ‘Predefined_lists’ function.Diagnostic_Accuracy_Tables: no visible binding for global variable ‘Predefined_lists’ function.Generate_Hypothesis: no visible binding for global variable ‘Predefined_lists’ function.Make_Conclusions_Effect_size: no visible binding for global variable ‘Predefined_lists’ function.Make_Conclusions_Effect_size: no visible binding for global variable ‘y’ function.Measurement_Error: no visible binding for global variable ‘Predefined_lists’ function.Measurement_Error: no visible binding for global variable ‘descriptive_summary’ function.Mixed_Effects_Regression: no visible binding for global variable ‘Predefined_lists’ function.Mixed_Effects_Regression: no visible binding for global variable ‘Actual’ function.Mixed_Effects_Regression: no visible binding for global variable ‘Predicted’ function.Mixed_Effects_Regression: no visible binding for global variable ‘fitted_values’ function.Mixed_Effects_Regression: no visible binding for global variable ‘raw_residuals’ function.Mixed_Effects_Regression: no visible binding for global variable ‘hat_values’ function.Mixed_Effects_Regression: no visible binding for global variable ‘cooks_distance’ function.Mixed_Effects_Regression: no visible binding for global variable ‘Actual.values’ function.Mixed_Effects_Regression: no visible binding for global variable ‘Predicted.values’ function.Multivariate_Regression: no visible binding for global variable ‘Predefined_lists’ function.Multivariate_Regression: no visible binding for global variable ‘Actual’ function.Multivariate_Regression: no visible binding for global variable ‘Predicted’ function.Multivariate_Regression: no visible binding for global variable ‘standardised_residuals’ function.Multivariate_Regression: no visible binding for global variable ‘Actual.values’ function.Multivariate_Regression: no visible binding for global variable ‘Predicted.values’ function.Regression_Analysis: no visible binding for global variable ‘Predefined_lists’ function.Regression_Analysis: no visible binding for global variable ‘Actual’ function.Regression_Analysis: no visible binding for global variable ‘Predicted’ function.Regression_Analysis: no visible binding for global variable ‘Actual.values’ function.Regression_Analysis: no visible binding for global variable ‘Predicted.values’ function.Repeated_Measures : func.unsuccessful.outcome: no visible binding for global variable ‘Predefined_lists’ function.Repeated_Measures : func.successful.outcome: no visible binding for global variable ‘Predefined_lists’ function.Repeated_Measures : func.successful.outcome: no visible binding for global variable ‘Time’ function.Repeated_Measures : func.successful.outcome: no visible binding for global variable ‘Average’ function.Repeated_Measures: no visible binding for global variable ‘outcome’ function.Repeated_Measures: no visible binding for global variable ‘subject_id’ function.Repeated_Measures: no visible binding for global variable ‘time_of_measurement’ function.Repeated_Measures: no visible binding for global variable ‘group’ function.Sample_Size_Calculations_Effect_size: no visible binding for global variable ‘Predefined_lists’ function.Sample_Size_Calculations_Primary: no visible binding for global variable ‘Predefined_lists’ function.Summary_Measures: no visible binding for global variable ‘Predefined_lists’ function.Survival_Analysis: no visible binding for global variable ‘Predefined_lists’ function.Survival_Analysis: no visible global function definition for ‘survfit2’ function.Survival_Analysis: no visible global function definition for ‘add_censor_mark’ function.Survival_Analysis: no visible global function definition for ‘add_confidence_interval’ function.Survival_Analysis: no visible global function definition for ‘scale_ggsurvfit’ function.Survival_Analysis: no visible global function definition for ‘add_risktable’ function.Time_Series: no visible global function definition for ‘forecast’ function.Time_Series : : no visible global function definition for ‘nsdiffs’ function.Time_Series : : no visible binding for global variable ‘Lag’ function.Time_Series : : no visible binding for global variable ‘ACF’ function.Time_Series: no visible binding for global variable ‘Predefined_lists’ function.plan_upload: no visible binding for global variable ‘Predefined_lists’ function.plan_upload : : no visible binding for global variable ‘Predefined_lists’ function.plan_upload: no visible binding for global variable ‘AN0001_results’ function.plan_upload_no_data: no visible binding for global variable ‘no_data_choices’ function.plan_upload_no_data : : no visible binding for global variable ‘Predefined_lists’ function.plan_upload_no_data: no visible binding for global variable ‘AN0001_results’ function.submit_choices: no visible global function definition for ‘write.table’ function.submit_choices: no visible binding for global variable ‘code_prefix’ function.submit_choices: no visible binding for global variable ‘no_data_choices’ Undefined global functions or variables: ACF AN0001_results Actual Actual.values Average Categories Lag Predefined_lists Predicted Predicted.values Time add_censor_mark add_confidence_interval add_risktable code_prefix cooks_distance descriptive_summary fitted_values forecast group hat_values no_data_choices nsdiffs outcome raw_residuals scale_ggsurvfit standardised_residuals subject_id survfit2 time_of_measurement write.table y Consider adding importFrom("utils", "write.table") to your NAMESPACE file. * checking Rd files ... [0s/0s] NOTE checkRd: (-1) function.Mixed_Effects_Regression.Rd:7: Lost braces 7 | Performs mixed effects regression analysis using \pkg{lme4} for mixed-effects linear, logistic, and Poisson regression, \pkg{mclogit} for mixed-effects mutinomial logistic regression, \pkg{ordinal} for mixed-effects ordinal regression, and \pkg{coxme} for mixed-effects Cox regression for binary outcomes. It uses \pkg{lmerTest} and \pkg{MuMIn} for performing stepwise regression. For linear, logistic, and Poisson regression, it chooses the best optimizer using \code{\link[lme4:allFit]{lme4::allFit()}}. It uses pkg{ggcorrplot} and \pkg{ggplot} for generating the plots, and \pkg{cowplot} for combining the plots. | ^ checkRd: (-1) function.Multivariate_Regression.Rd:7: Lost braces 7 | Performs multivariate regression analysis using \pkg{lme4} for multivariate linear, logistic, and Poisson regression and \pkg{stats} for performing stepwise regression. The user interface accepts multinomial and ordinal variables, but the results for regression types other than multivariate linear and logistic regressions are unverified. It uses pkg{ggcorrplot} and \pkg{ggplot} for generating the plots, and \pkg{cowplot} for combining the plots. | ^ checkRd: (-1) function.Regression_Analysis.Rd:7: Lost braces 7 | Performs regression analysis without mixed-effects for a single reponse using \pkg{stats} for linear, logistic, and Poisson regression, \pkg{nnet} for mutinomial logistic regression, \pkg{MASS} for ordinal regression, and \pkg{survival} for Cox regression for binary outcomes. It uses \pkg{stats} for performing stepwise regression. It uses pkg{ggcorrplot} and \pkg{ggplot} for generating the plots, and \pkg{cowplot} for combining the plots. | ^ * checking Rd metadata ... OK * checking Rd line widths ... NOTE Rd file 'compile_questions.Rd': \examples lines wider than 100 characters: '
  • Please enter the group only if you want the plots to be split by groups; otherwise, please leave this empty.
  • If you select EQUAL-STATS choice, for categorical variables, clustered bar charts are used as default. For quantitative variables, ... [TRUNCATED]
  • For “Before-After” plots, particularly for categorical variables, the plots get crowded when the number of categories is high.
    • 'EQUAL-STATS choice%__%Histogram%__%Boxplot%__%Vertical bar chart%__%Horizontal bar chart%__%Vertical bar chart with error bars%__%Pie ... [TRUNCATED] 'Select the variable for which the plot is required%__%Select the variable for which the plot is required%__%Select the variable for wh ... [TRUNCATED] 'NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%Select the variable to group by%__%Select the variable to group by%__%Select the varia ... [TRUNCATED] 'Enter the title for the plot%__%Enter the title for the plot%__%Enter the title for the plot%__%Enter the title for the plot%__%Enter ... [TRUNCATED] 'Select the variable for which you want to create separate plot for each category (optional)%__%Select the variable for which you want ... [TRUNCATED] '%_%selectInput%_%rv$import_data$any_type%__%%_%selectInput%_%rv$import_data$quantitative%__%%_%selectInput%_%rv$import_data$quantitati ... [TRUNCATED] 'NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%%_%selectInput%_%c("",setdiff(rv$import_data$categorical, rv$entry[[1]]))%__%%_%select ... [TRUNCATED] '%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%t ... [TRUNCATED] '%_%selectInput%_%c("",setdiff(rv$import_data$categorical, rv$entry[[1]]))%__%%_%selectInput%_%c("",setdiff(rv$import_data$categorical, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), 'min = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][3])), ', ', 'max = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][4])), ', ', 'value = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][5])), Rd file 'convert_to_user_interface.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), UI_texts <- convert_to_user_interface(UI_name = UI_name, label = label, entry_text = entry_text, rv = rv) Rd file 'function.Check_Distribution.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Compare_Groups.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Compare_Sample_Pop_Means.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Correlation.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Create_Plots.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Diagnostic_Accuracy_Primary.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Diagnostic_Accuracy_Tables.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Generate_Hypothesis.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Make_Conclusions_Effect_size.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Measurement_Error.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Mixed_Effects_Regression.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Multivariate_Regression.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Regression_Analysis.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Repeated_Measures.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Sample_Size_Calculations_Effect_size.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Sample_Size_Calculations_Primary.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Summary_Measures.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Survival_Analysis.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] `Admission to care home` = c("Not admitted", "Not admitted", "Admitted", "Not admitted", "Admitted", "Admitted", "Not admitted", "Adm ... [TRUNCATED] `Follow-up` = c(10, 8, 8, 8, 12, 12, 11, 10, 8, 7, 8, 6, 9, 6, 9, 8, 10, 8, 11, 9, 6, 9, 12, 9, 8, 11, 12, 9, 10, 11, 12, 10, 6, 11, ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.Time_Series.Rd': \examples lines wider than 100 characters: summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.plan_upload.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] # Several additional functions are necessary to execute the plan. Therefore, the plan contains wrong field names which are not present ... [TRUNCATED] plan <- cbind.data.frame("AN0001", "Check_Distribution", "", "Mobility score at 60 months", "", "", "", "", "", "", "", "", "", "", "", ... [TRUNCATED] colnames(plan) <- c("analysis_number", "first_menu_choice", "second_menu_choice", "entry_1", "entry_2", "entry_3", "entry_4", "entry_5" ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.plan_upload_no_data.Rd': \examples lines wider than 100 characters: # This requires several additional functions to complete successfully. Therefore, column names was altered to demonstrate the unsuccess ... [TRUNCATED] plan <- cbind.data.frame("AN0001", "Generate_Hypothesis", "", "Intensive rehabilitation", "Standard rehabilitation", "Intervention is b ... [TRUNCATED] colnames(plan) <- c("analysis_number", "menu_choice", "second_menu_choice", "entry_1", "entry_2", "entry_3", "entry_4", "entry_5", "ent ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), no_data_choices <- c("Generate_Hypothesis", "Sample_Size_Calculations_Effect_size", "Make_Conclusions_Effect_size", "Diagnostic_Accurac ... [TRUNCATED] Rd file 'function.rbind_different_column_numbers.Rd': \examples lines wider than 100 characters: # Calculate means and standard deviations for normally distributed variables and median and upper and lower quartiles for combined_data_frame <- try(rbind.data.frame(normally_distributed_variables, non_normally_distributed_variables)) # Combining the variables in a single data_frame using function.rbind_different_column_numbers does not cause error # Note that data frames must be supplied as a list (any number of data frames can be present in the list) combined_data_frame_new_function <- function.rbind_different_column_numbers(list(normally_distributed_variables, non_normally_distribut ... [TRUNCATED] Rd file 'function.read_data.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] Rd file 'function.read_metadata.Rd': \examples lines wider than 100 characters: `Subject ID` = c("S0001", "S0002", "S0003", "S0004", "S0005", "S0006", "S0007", "S0008", "S0009", "S0010", "S0011", "S0012", "S0013", ... [TRUNCATED] `Centre` = c("C_0001", "C_0002", "C_0002", "C_0002", "C_0002", "C_0001", "C_0001", "C_0003", "C_0001", "C_0003", "C_0001", "C_0002", ... [TRUNCATED] `Treatment` = c("Intensive rehabilitation", "Intensive rehabilitation", "Standard rehabilitation", "Intensive rehabilitation", "Inten ... [TRUNCATED] `Obesity status` = c("Obese", "Non-obese", "Obese", "Non-obese", "Non-obese", "Obese", "Obese", "Obese", "Non-obese", "Obese", "Non-o ... [TRUNCATED] `Unable to walk independently at 6 weeks` = c("unable", "able", "able", "unable", "able", "able", "unable", "unable", "unable", "unab ... [TRUNCATED] `Mobility score at 6 months` = c(86, 65.1, 48, 99.8, 73.4, 70, 74.7, 36.5, 64.6, 85.4, 41.7, 60.1, 73.3, 42.4, 55.3, 47.3, 85.9, 63, ... [TRUNCATED] `Pain at 6 weeks` = c("3_severe", "1_mild", "1_mild", "2_moderate", "1_mild", "1_mild", "2_moderate", "2_moderate", "1_mild", "3_seve ... [TRUNCATED] `Number of falls within 6 months` = c(3, 2, 3, 2, 2, 1, 4, 2, 2, 5, 3, 2, 2, 2, 5, 3, 2, 2, 3, 4, 3, 1, 2, 2, 2, 7, 2, 1, 1, 8, 4, 1, ... [TRUNCATED] `Mobility score at 12 months` = c(90, 69.1, 52, 103.8, 77.4, 74, 78.7, 40.5, 68.6, 89.4, 45.7, 64.1, 77.3, 46.4, 59.3, 51.3, 89.9, 67 ... [TRUNCATED] # The first row indicates data type and the second row indicates the reference category (for all types of categorical variables) metadata_first_two_rows <- cbind.data.frame(c("nominal","S0001"), c("nominal", "C_0001"), c("binary", "Standard rehabilitation"), c("bi ... [TRUNCATED] # For this simulation, we will change the reference category but retain the remaining default order of variable levels if ((metadata_first_two_rows[1,y] == "quantitative") | (metadata_first_two_rows[1,y] == "counts")) { if ((metadata_first_two_rows[1,y] == "quantitative") | (metadata_first_two_rows[1,y] == "counts")) { summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), Rd file 'function.submit_choices.Rd': \examples lines wider than 100 characters: no_data_choices <- c("Generate_Hypothesis", "Sample_Size_Calculations_Effect_size", "Make_Conclusions_Effect_size", "Diagnostic_Accurac ... [TRUNCATED] Rd file 'text_to_evaluate_first_menu_selection.Rd': \examples lines wider than 100 characters: '
    • Please enter the group only if you want the plots to be split by groups; otherwise, please leave this empty.
    • If you select EQUAL-STATS choice, for categorical variables, clustered bar charts are used as default. For quantitative variables, ... [TRUNCATED]
    • For “Before-After” plots, particularly for categorical variables, the plots get crowded when the number of categories is high.
      • 'EQUAL-STATS choice%__%Histogram%__%Boxplot%__%Vertical bar chart%__%Horizontal bar chart%__%Vertical bar chart with error bars%__% ... [TRUNCATED] 'Select the variable for which the plot is required%__%Select the variable for which the plot is required%__%Select the variable fo ... [TRUNCATED] 'NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%Select the variable to group by%__%Select the variable to group by%__%Select the v ... [TRUNCATED] 'Enter the title for the plot%__%Enter the title for the plot%__%Enter the title for the plot%__%Enter the title for the plot%__%En ... [TRUNCATED] 'Select the variable for which you want to create separate plot for each category (optional)%__%Select the variable for which you w ... [TRUNCATED] '%_%selectInput%_%rv$import_data$any_type%__%%_%selectInput%_%rv$import_data$quantitative%__%%_%selectInput%_%rv$import_data$quanti ... [TRUNCATED] 'NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%NULL%__%%_%selectInput%_%c("",setdiff(rv$import_data$categorical, rv$entry[[1]]))%__%%_%se ... [TRUNCATED] '%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__%%_%text%_%"Plot title"%__% ... [TRUNCATED] '%_%selectInput%_%c("",setdiff(rv$import_data$categorical, rv$entry[[1]]))%__%%_%selectInput%_%c("",setdiff(rv$import_data$categori ... [TRUNCATED] summary_measures_choices = c("EQUAL-STATS choice", "Total observations", "Missing observations", "Available observations"), details <- data.frame(Predefined_lists[names(Predefined_lists)[is.na(match(names(Predefined_lists),c("show_menu", "hide_menu", "hide_ ... [TRUNCATED] labels <- as.vector(unlist(details[function_number, colnames(details)[substr(colnames(details), 1, 6) == "label_"]])) entry_texts <- as.vector(unlist(details[function_number, colnames(details)[substr(colnames(details), 1, 6) == "entry_"]])) mandatory_entries <- as.vector(unlist(details[function_number, colnames(details)[substr(colnames(details), 1, 10) == "mandatory_"]])) second_menu_function_number <- match(second_menu_choice, str_split(details$second_menu_choices[function_number],"%__%")[[1]]) convert_to_user_interface(UI_name = UI_names[x], label = labels[x], entry_text = entry_texts[x], rv = rv) if(length(labels) < 15) {paste0('output$', 'entry_', (length(labels)+1):15, '_UI <- NULL')} if(length(labels) < 15) {paste0('output$', 'entry_', (length(labels)+1):15, '_UI <- NULL')} paste0('(TRUE %in% (rv$entry[[',which(mandatory_entries == "yes"),']] != ""))', collapse = ' & ') ... [TRUNCATED] ') {rv$submit_button_to_appear <- TRUE} else {rv$submit_button_to_appear <- FALSE}' 'min = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][3])), ', ', 'max = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][4])), ', ', 'value = ', suppressWarnings(as.numeric(str_split(entry_text,"%_%")[[1]][5])), first_menu_questions <- text_to_evaluate_first_menu_selection(Predefined_lists = Predefined_lists, rv = rv) second_menu_text <- text_to_evaluate_first_menu_selection(Predefined_lists = Predefined_lists, rv = rv) These lines will be truncated in the PDF manual. * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... [25s/25s] OK * checking PDF version of manual ... [4s/4s] OK * checking HTML version of manual ... [1s/1s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 6 NOTEs