Back When All Was Continuous Chuckles Themes

The following themes are available to use within the gtsummary package. Print theme elements with theme_gtsummary_journal(set_theme = FALSE) %>% print(). Review the themes vignette for details.

                                          theme_gtsummary_journal                (                                            journal                =                c                (                "jama",                "lancet",                "nejm",                "qjecon"                ),                              set_theme                =                TRUE                                            )                                                          theme_gtsummary_compact                (set_theme                =                TRUE, font_size                =                NULL                )                                                          theme_gtsummary_printer                (                                            print_engine                =                c                (                "gt",                "kable",                "kable_extra",                "flextable",                "huxtable",                "tibble"                ),                              set_theme                =                TRUE                                            )                                                          theme_gtsummary_language                (                                            language                =                c                (                "de",                "en",                "es",                "fr",                "gu",                "hi",                "is",                "ja",                "kr",                "mr",                "nl",                "no",                              "pt",                "se",                "zh-cn",                "zh-tw"                ),                              decimal.mark                =                NULL,                              big.mark                =                NULL,                              iqr.sep                =                NULL,                              ci.sep                =                NULL,                              set_theme                =                TRUE                                            )                                                          theme_gtsummary_continuous2                (                                            statistic                =                "{median} ({p25, {p75})",                              set_theme                =                TRUE                                            )                                                          theme_gtsummary_mean_sd                (set_theme                =                TRUE                )                                                          theme_gtsummary_eda                (set_theme                =                TRUE                )                                    

Arguments

journal

String indicating the journal theme to follow. One of c("jama", "lancet", "nejm", "qjecon"). Details below.

set_theme

Logical indicating whether to set the theme. Default is TRUE. When FALSE the named list of theme elements is returned invisibly

font_size

Numeric font size for compact theme. Default is 13 for gt tables, and 8 for all other output types

print_engine

String indicating the print method. Must be one of "gt", "kable", "kable_extra", "flextable", "tibble"

language

String indicating language. Must be one of "de" (German), "en" (English), "es" (Spanish), "fr" (French), "gu" (Gujarati), "hi" (Hindi), "is" (Icelandic),"ja" (Japanese), "kr" (Korean), "nl" (Dutch), "mr" (Marathi), "no" (Norwegian), "pt" (Portuguese), "se" (Swedish), "zh-c,n" (Chinese Simplified), "zh-tw" (Chinese Traditional)

If a language is missing a translation for a word or phrase, please feel free to reach out on GitHub with the translated text!

decimal.mark

The character to be used to indicate the numeric decimal point. Default is "." or getOption("OutDec")

big.mark

Character used between every 3 digits to separate hundreds/thousands/millions/etc. Default is ",", except when decimal.mark = "," when the default is a space.

iqr.sep

string indicating separator for the default IQR in tbl_summary(). If decimal.mark= is NULL, iqr.sep= is ", ". The comma separator, however, can look odd when decimal.mark = ",". In this case the argument will default to an en dash

ci.sep

string indicating separator for confidence intervals. If decimal.mark= is NULL, ci.sep= is ", ". The comma separator, however, can look odd when decimal.mark = ",". In this case the argument will default to an en dash

statistic

Default statistic continuous variables

Themes

• theme_gtsummary_journal(journal=)

  • "jama" The Journal of the American Medical Association

    • Round large p-values to 2 decimal places; separate confidence intervals with "ll to ul".

    • tbl_summary() Doesn't show percent symbol; use em-dash to separate IQR; run add_stat_label()

    • tbl_regression()/tbl_uvregression() show coefficient and CI in same column

  • "lancet" The Lancet

    • Use mid-point as decimal separator; round large p-values to 2 decimal places; separate confidence intervals with "ll to ul".

    • tbl_summary() Doesn't show percent symbol; use em-dash to separate IQR

  • "nejm" The New England Journal of Medicine

    • Round large p-values to 2 decimal places; separate confidence intervals with "ll to ul".

    • tbl_summary() Doesn't show percent symbol; use em-dash to separate IQR

  • "qjecon" The Quarterly Journal of Economics Under Development

    • tbl_summary() all percentages rounded to one decimal place

    • tbl_regression()/tbl_uvregression() add significance stars with add_significance_stars(); hides CI and p-value from output

• theme_gtsummary_compact()

  • tables printed with gt, flextable, kableExtra, or huxtable will be compact with smaller font size and reduced cell padding

• theme_gtsummary_printer(print_engine=)

  • Use this theme to permanently change the default printer.

• theme_gtsummary_continuous2()

  • Set all continuous variables to summary type "continuous2" by default

• theme_gtsummary_mean_sd()

  • Set default summary statistics to mean and standard deviation in tbl_summary()

  • Set default continuous tests in add_p() to t-test and ANOVA

• theme_gtsummary_eda()

  • Set all continuous variables to summary type "continuous2" by default

  • In tbl_summary() show the median, mean, IQR, SD, and Range by default

Use reset_gtsummary_theme() to restore the default settings

Review the themes vignette to create your own themes.

Example Output

Example

See also

Examples

                                                                    # \donttest{                                                                                        # Setting JAMA theme for gtsummary                                                                                        theme_gtsummary_journal                    (                    "jama"                    )                                                                    #>                  Setting theme `JAMA`                                                      # Themes can be combined by including more than one                                                                                        theme_gtsummary_compact                    (                    )                                                                    #>                  Setting theme `Compact`                                                                                                        set_gtsummary_theme_ex1                    <-                                                                                        trial                    %>%                                                                                        select                    (                    age,                    grade,                    trt                    )                    %>%                                                                                        tbl_summary                    (by                    =                    trt                    )                    %>%                                                                                        as_gt                    (                    )                                                                                                                                          # reset gtsummary themes                                                                                        reset_gtsummary_theme                    (                    )                                                                                        # }                                                            

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Source: https://www.danieldsjoberg.com/gtsummary/reference/theme_gtsummary.html

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