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Crosstables for descriptive analyses. See documentation at https://danchaltiel.github.io/crosstable/ and browse code at https://github.com/DanChaltiel/crosstable.
body_add_table_section(), which adds a table (crosstable or flextable) which can be surrounded by a title (level 3 by default), a legend, and/or a short sentence.set_label() now accepts a function as a value (e.g. set_label(mtcars2, toupper)).format_fixed(scientific) can now be FALSE to force standard format. Can be set through options(crosstable_scientific_log=FALSE) (#49).format_fixed(epsilon) to format values as "<epsilon". Can be set through options(crosstable_format_epsilon=0.001).body_add_normal("Here is **`some code` in bold & *italic* ** <br> And here is <color:red>red text</color>.")?body_add_normal for more insight.NA (missing values) and “NA” (characters) (#42).as_flextable(by_header) can now be set through options(crosstable_by_header=FALSE) to remove all headers.body_add_crosstable(header_fontsize) now defaults to 1.2*body_fontsize.as_flextable() when the crosstable is empty (#41).write_and_open() not opening sometimes.crosstable_options() fail anymore.Fixes for CRAN checks.
New function transpose_crosstable() (or simply t()), which transposes a crosstable so that by is in rows instead of columns.
New function pivot_crosstable(), which pivots a crosstable so that variable is spread as several columns.
body_add_table_list() now replaces body_add_crosstable_list() and body_add_flextable_list(). It allows both crosstables and flextable (and even dataframes, which are turned to flextables first) and has a new argument fun_after to control what comes after the table. See examples in ?body_add_table_list.
New function get_percent_pattern(). See also the new vignette vignette("percent_pattern").
New argument crosstable(drop_levels=TRUE) to drop unused levels in factors.
copy_label_from() now works on dataframes as well.
as_flextable(header_show_n_pattern) can now be a list of names cell and total, so that the “Total” column can be labelled too.
showNA="no" is now consistent with stats::addmargins(), gtsummary::tbl_cross(missing="no"), and janitor::tabyl(show_na=FALSE). It now actually removes all NA from the equation, instead of not doing much (#24).
In percent_patern, the proportion relative to the total sample p_cell has been renamed to p_tot for clarity.
header_show_n=TRUE and remove_header_keys=TRUE while using multiple by variables (#21).body_add_xxx_legend().crosstable() will not fail if fisher.test() fails [#28]forcats::fct_explicit_na() is not used anymore [#29]body_add_normal() now removes ` symbols when showing code [#31]apply_labels() fail anymore [#32]Many thanks to Stephan Daus (@sda030) for his bug reports and feedback on this release.
clean_names_with_labels() which cleans the names of the dataframe but keeps the old names as labels. Obviously inspired by {janitor}.n_col, n_row, and n_tot available for percent_pattern. Also, every variable has now its counterpart with the _na suffix which accounts for missing values. crosstable(mtcars2, cyl, percent_pattern="{p_col} ({n}/{n_col}) [95%CI: {p_col_inf}; {p_col_sup}]")
crosstable(mtcars2, cyl, percent_pattern="{p_col_na} ({n}/{n_col_na}) [95%CI: {p_col_inf}; {p_col_sup}]")percent_pattern can now be a list of characters with names body, total_row, total_col, and total_all to also control the pattern in other parts of the crosstable than the body.crosstable_options() does not need the “crosstable_” prefix anymore, so the autocomplete is less clumsy. Options with the prefix will still work though. crosstable_options(reset=TRUE) is deprecated in favor of the new crosstable_reset_options().crosstable_test_args() and crosstable_effect_args() now have arguments to easily control the non-default parameters.which abs(log10(x))>4. This can be controlled using options, e.g. crosstable_options(scientific_log=5).body_add_crosstable(allow_break=FALSE) or using crosstable_options(). This is the pendant of keepnext in officer/flextable.body_add_crosstable(max_cols=25), which limits the size of crosstables in Word documents. This prevents very large tables to be wrongly included.peek() is now usable on non-crosstable objects as well. as_flextable() method will be applied on the object if available, otherwise flextable() will be applied.import_labels() when data_label doesn’t have the right columns.rename_dataframe_with_labels() is now deprecated in favor of the better named rename_with_labels().compact() is now deprecated in favor of ct_compact() to avoid the conflict with purrr::compact(). It will be removed in the next version.body_add_crosstable(..., parse=NULL) will now work as intended .by_header can replace the “value” column if by has only one stratum, in both as_gt() and as_flextable() (https://github.com/DanChaltiel/crosstable/issues/9).percent_pattern can now contain functions that start by “p” (https://github.com/DanChaltiel/crosstable/issues/10).percent_pattern is actually taken into account when by has one single level (https://github.com/DanChaltiel/crosstable/issues/13).import_labels() now works even if there is a missing value in the dataframe.body_add_normal(): **bold**, *italic*, _underlined_, and `code`.keep_id argument in compact.crosstable(), which enables as_flextable(compact=TRUE, keep_id=TRUE)as_flextable(header_show_n_pattern) to change the glue pattern of these group sizes. The default is {.col} (N={.n}); you can use {.col_key} and {.col_val} when by has multiple strata.body_add_table_legend() and body_add_figure_legend() earn an argument legend_prefix. Useful when set through global options, for instance to make every table/figure start with the name of the study.crosstable_options() can handle new options for all those new features.body_add_normal() (it was only doable through options before).mtcars2 is now a tibble, with its rownames as a column named “model”.as_flextable(by_header=FALSE) now removes the group header (if by has only one stratum).as_flextable(header_show_n) now also works if by has multiple strata.as_flextable(header_show_n=TRUE) adds group size for all groups.NA value).body_add_normal() to add an extra empty paragraph if there was a reference in the text.body_add_normal() can be used without argument.effect=TRUE when some groups were present in table() but not in glm() due to missing values.crosstable_options() and autocompletion. Almost every argument can now be set using options. See ?crosstable_options for further details.crosstable_peek_options() to see which crosstable option is currently set.num_digits in crosstable(). It was about time!header_show_n for as_flextable(), which adds the group size (N=xx) to the header of the flextable.par_before and par_after in respectively body_add_table_legend() and body_add_figure_legend(), which add an empty paragraph before/after the legend (for readability).body_replace_text_at_bkms(), to replace several bookmarks at once.crosstable_options(crosstable_zero_percent=FALSE), which removes percentages whenever n==0 (as it would always be 0%). I should add it as an argument of crosstable() one day…crosstable() occurring when one of funs does not have ellipsis (…) and funs_arg contains an unused argument.percent_pattern in replacement of crosstable(margin=x) for better control over proportion format. Introduces the possibility of displaying confidence intervals (using Wilson score method) along with proportions.body_add_crosstable_list() to add a list of crosstables all at once, separated by some customizable titles. Also works with flextables and plain old dataframes.crosstable_padding_v for as_flextable() to manage vertical padding. Also available as the global option crosstable_padding_v.crosstable_{arg} for almost all arguments. See ?crosstable_options for more details.as_flextable() occurring when showNA=TRUE (header row was disappearing)format_fixed() to return a numeric value (“Error: Can’t combine ..1$value ..2$value by when it is a factormaster to mainby! You can now write crosstable(mtcars, c(mpg, gear), by=c(am, vs)) %>% as_flextable().generate_autofit_macro() which creates a file that should then be imported into MS Word.body_add_crosstable() gains a padding_v argument to control the vertical padding of all rows.body_add_title() and body_add_xxx_legend) gain a glue functionality. You can now write body_add_title("The iris dataset (nrow={nrow(iris)})", 1).as_workbook() can now take a named list of crosstables, that will be considered as sheets.percent in format_fixed(percent=TRUE/FALSE) to easily format percentages.style is deprecated in body_add_table_legend() and body_add_image_legend() in favor of name_format.effect calculations that were done by column instead of rows. That might change some outputs but not their meaning.body_add_normal() now removes duplicated spaces (squish) in its input by default. Use squish=FALSE to override.docx_bookmarks2() gains a target parameter.effect calculation now takes into account the reference level (first level of a factor).body_add_crosstable() rightly takes body_fontsize and header_fontsize into account.burglr::burgle() to avoid dependency: nortest::ad.test() and DescTools::CochranArmitageTest().testthat (https://github.com/DanChaltiel/crosstable/pull/3).funs, especially with multiple combinations of named and unnamed functions, including lambda or anonymoussimplify=FALSE in get_label() to get a list instead of a vector?crosstable_options for the comprehensive list.apply_labels() (inspired by expss’s), copy_label_from() and rename_dataframe_with_labels()as_workbook() to export a crosstable as a formatted openxlsx Excel workbook, for copypasting purpose.peek() to open a crosstable in a temporary Word document, as copy-pasting in RStudio’s viewer is very limited.<NA> (missing).funs was not found if declared in another environment.body_add_figure_legend() and body_add_table_legend().bookmark argument to set a reference, then write "\\@ref(my_bkm)" inside body_add_normal() to call it.body_add_list() and body_add_list_item(). These will unfortunately not work with the default officer template.officer functions:docx_bookmarks2(), which list bookmarks found in the header and footer as wellbody_add_img2(), and body_add_gg2(), which win a units=c("in", "cm", "mm") argumentwrite_and_open(), an alternative to print() for documents, which tries to open it right away....) use in crosstable() has been deprecated for a more “tidy” syntax. Write crosstable(mtcars2, c(disp, vs)) instead of crosstable(mtcars2, disp, vs). Ellipsis will be defunct in future v1.0.crosstable(.vars=) has been renamed to crosstable(cols=).moystd() has been renamed to meansd().body_add_glued() has been superseded by body_add_normal(), which inherits all functionalities and more.gt tables (with as_gt()) for those who like them better than flextablesofficer: added body_add_figure_legend() and fontsize options for body_add_crosstable()save_labels() to ease working with dplyrmeanCI() an additional summary function to use in crosstable()’s funs argumentDate variablesmoystd() to meansd()Date variables. Format can be specified in funs_arg with the date_format key.format_fixed(), rounding with the right number of decimals (including zeros)import_labels(), which apply labels taken from a source dataframe (name, label) to another dataframemargin="none" option, to remove percentages and keep only countscross_to_flextable() (ctf()) was deprecated and renamed as_flextable() (#207)compact()biostat2 package.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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