• Added gtreg, emmeans, ggsurvfit, and tidycmprsk to the template references document. (#112)
  • Update to to RStudio preferences function.
  • Added ability to report the number of events and the total number of observations in followup_time().
  • Added ability to add a smooth line in ggcalibrate().
  • Deprecated reinstall_prior_pkgs() in favor of updater::install_pkgs().

  • Added ggcalibration() function.

  • Update to add_sparkline() to handle updated API in {gtExtras}. (#101)

  • Added use_bst_rstudio_prefs(profile=) argument allowing users to modify the standard biostatistics preferences.

  • Update to the HOT project template.
  • Updated project template .gitignore file.
  • Removed "as_flex_table-lgl:use_ftExtra" gtsummary theme element from HOT template. There seems to be an issue with {ftExtra} when the package is knit (but works interactively).
  • Overhaul to create_bst_project() including updated interface and templates.

  • Updated auc_density() to better handle cut points and 0 and 1 and improved output structure by adding sensitivity and specificity estimates to a tibble.

  • Added new functions add_n.tbl_likert() and add_continuous_stat().tbl_likert() (#55)

  • Updated templates associated with create_bst_project() including adding a SAS template (#84)

  • Updates the the theme_gtsummary_msk("hot") theme.
    • Default chi-square test without continuity correction removed since it is the current default for tbl_summary.
    • Added the compact theme to the the HOT theme.
  • Added a method to calculate adjusted differences for binary endpoints using logistic regression logistic_reg_adj_diff(). (#20)
  • No changes. Making release for RSPM.
  • Bug fix in HOT project template where the reference.bib file was being placed in the incorrect folder.

  • Columns "mrn", "id", or "patient_id" will now be moved to the front of the data frame after labels have been applied using set_derived_variables().

  • Fix to the H.O.T. use_hot_file() default template specification.

  • Increased minimum R version and minimum version of {starter} package (after bug fix).

  • Updates to the templating files.

  • Updated custom template definitions to utilize parts from the default template, reducing the amount of code needed to create a custom template.

  • Added new function bold_italicize_group_labels() to bold and italicize group header labels in gtsummary tables. (#65)

  • Function add_cuminc_risktables() now allows for 3 groups. Makes colors consistent between labels and estimates. Removed “Number at risk” label and places a label “, n:” next to each strata name.

  • Migrated the H.O.T. project templates from {hotfun} to {bstfun}.

  • Added new function clean_mrn() to clean and check consistency of MRN columns.

  • Added new function set_derived_variables() that imports variable labels from an excel file and applies the labels to the data frame.

  • Added new function count_map() to aid in checking variable derivations.

  • Added new function count_na() to assess variable missing patterns.

  • Added new function get_mode() to obtain the mode of a variable.

  • Added new function list_labels() to obtain a named list of column names and their labels.

  • Added new function assign_timepoint() to aid in selecting observations at various follow-up times, e.g. selecting the 6 and 12 month lab result from a long data set of all labs.

  • Added new function add_splines().

  • Added new functions for calculating eGFR: egfr_mdrd() and egfr_ckdepi().

  • Migrated H.O.T. project creation functions from the hotfun package.

  • Added two functions for calculating AUC based on the distribution of a variable.

  • Removed use of deprecated function in tbl_likert().

  • Added new function followup_time() that reports the amount of follow-up among censored patients.

  • Added new function list_labels() to extract the variable labels from a data frame.

  • Added new function rm_logs() to delete logs created from submitting jobs to the HPCC.

  • Updated how references are added in cite_r().
  • Added new function add_sparkline()–a wrapper for gtExtras::gt_sparkline() that adds distributional figures in a new column of a ‘tbl_summary’ table.

  • Updated default argument value: as_forest_plot(xlog = x$inputs$exponentiate).

  • Deprecated tbl_2way_summary() in favor of gtsummary::tbl_continous().

  • Cleaning up functions that have been deprecated.

  • Removing old {gtsummary} “core” code that had been copied into the package.

  • Updated the references file in the {bstfun} project template.

  • Exporting get_data_date() function used in here_data()

  • Bug fix in path_data() where getOption("path_data") was not correctly being imported. The arguments of path_data() have been re-arranged.

  • Update to here_data() to import the data date properly when the date is not followed by a hard return. (#42)
  • Added function cite_r() to assist in citing R and R packages in R markdown reports.

  • Updated default project template to include references in report.Rmd.

  • Added function use_varnames_as_labels() to assign title case (or all CAP) labels from the column names of a data frame.

  • Switched {starter} dependency from GitHub to CRAN.

  • Bug fix in tbl_2way_summary(). Now forcing the continuous variable to be summarized continuously.

  • Added path_data() function.

  • Updates to project templates.
  • Added new function create_bst_project(), a wrapper for starter::create_project() that drops a copy of the Biostatistics project template into a new or existing folder. The function defaults to the Biostatistics template, but any template may be passed.

  • Added new functions use_bst_file(), use_bst_gitignore(), and use_bst_readme() to drop files from the HOT template into the active project.

  • Migrated the Biostatistics template from the biostatR package (behind a firewall) to the bstfun package.

  • Added function gtsummary_butcher() to reduce the size of a gtsummary table. After an object has been butchered, other gtsummary functions may not be able to execute on the object.

  • Added here_data(path_to_data_date=) argument to specify location of data date file.

  • Adding add_inline_forest_plot() function to add forest plots to gtsummary tables. (#27)

  • Added the theme_gtsummary_msk() function. This is a place for any member of the MSK community to add their person gtsummary theme.

  • Added the here_data() function. Similar to here::here() which returns your project directory, here_data() returns the path to your current data folder based on the date in data_date.txt.

  • First release