From 205579b6b2ec039984bcc37b85782958d6941fb8 Mon Sep 17 00:00:00 2001 From: "Daniel E. de la Rosa" Date: Sat, 17 Aug 2024 21:56:24 -0400 Subject: [PATCH] feat: Add `show_set_totals` Argument to Display Set Totals This commit introduces a new argument, `show_set_totals`, to the `ggvenn` and `geom_venn` functions. This allows users to optionally display the total count and/or percentage for each set in the Venn diagram. The `show_set_totals` argument accepts the following values: * `"c"`: Show only the count for each set. * `"p"`: Show only the percentage for each set. * `"cp"`: Show both the count and percentage for each set. * `"none"`: Hide the set totals (default). This new feature provides users with more information about the composition of their Venn diagrams and enhances the overall clarity of the visualization. --- .Rbuildignore | 1 + .github/.gitignore | 1 + .github/workflows/R-CMD-check.yaml | 52 + DESCRIPTION | 4 +- NAMESPACE | 3 + R/geom_venn.R | 28 +- R/ggvenn.R | 73 +- README.md | 5 + man/geom_venn.Rd | 53 +- man/ggvenn.Rd | 15 +- tests/testthat/_snaps/ggvenn.md | 4 +- tests/testthat/_snaps/set-totals.md | 5054 +++++++++++++++++++++++++++ tests/testthat/_snaps/stats.md | 1298 ++++++- tests/testthat/test-geom_venn.R | 2 +- tests/testthat/test-set-totals.R | 52 + tests/testthat/test-stats.R | 3 +- 16 files changed, 6601 insertions(+), 47 deletions(-) create mode 100644 .github/.gitignore create mode 100644 .github/workflows/R-CMD-check.yaml create mode 100644 tests/testthat/_snaps/set-totals.md create mode 100644 tests/testthat/test-set-totals.R diff --git a/.Rbuildignore b/.Rbuildignore index 8353e4e..271aed0 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -5,3 +5,4 @@ plots ^_pkgdown\.yml$ ^docs$ ^pkgdown$ +^\.github$ diff --git a/.github/.gitignore b/.github/.gitignore new file mode 100644 index 0000000..2d19fc7 --- /dev/null +++ b/.github/.gitignore @@ -0,0 +1 @@ +*.html diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml new file mode 100644 index 0000000..d46a617 --- /dev/null +++ b/.github/workflows/R-CMD-check.yaml @@ -0,0 +1,52 @@ +# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples +# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help +on: + push: + branches: [main, master] + pull_request: + branches: [main, master] + +name: R-CMD-check.yaml + +permissions: read-all + +jobs: + R-CMD-check: + runs-on: ${{ matrix.config.os }} + + name: ${{ matrix.config.os }} (${{ matrix.config.r }}) + + strategy: + fail-fast: false + matrix: + config: + - {os: macos-latest, r: 'release'} + - {os: windows-latest, r: 'release'} + - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} + - {os: ubuntu-latest, r: 'release'} + - {os: ubuntu-latest, r: 'oldrel-1'} + + env: + GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} + R_KEEP_PKG_SOURCE: yes + + steps: + - uses: actions/checkout@v4 + + - uses: r-lib/actions/setup-pandoc@v2 + + - uses: r-lib/actions/setup-r@v2 + with: + r-version: ${{ matrix.config.r }} + http-user-agent: ${{ matrix.config.http-user-agent }} + use-public-rspm: true + + - uses: r-lib/actions/setup-r-dependencies@v2 + with: + extra-packages: any::rcmdcheck + needs: check + + - uses: r-lib/actions/check-r-package@v2 + with: + upload-snapshots: true + build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")' diff --git a/DESCRIPTION b/DESCRIPTION index 404b635..3f3a9a7 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: ggvenn Title: Draw Venn Diagram by 'ggplot2' -Version: 0.1.15 +Version: 0.1.16 Authors@R: person(given = "Linlin", family = "Yan", role = c("aut", "cre"), email = "yanlinlin82@gmail.com", @@ -22,4 +22,4 @@ Imports: scales, lifecycle Roxygen: list(markdown = TRUE) -Config/testthat/edition: 3 \ No newline at end of file +Config/testthat/edition: 3 diff --git a/NAMESPACE b/NAMESPACE index 5fba5b0..94095dc 100644 --- a/NAMESPACE +++ b/NAMESPACE @@ -16,6 +16,7 @@ importFrom(dplyr,tibble) importFrom(dplyr,tribble) importFrom(ggplot2,aes) importFrom(ggplot2,coord_fixed) +importFrom(ggplot2,expansion) importFrom(ggplot2,geom_polygon) importFrom(ggplot2,geom_segment) importFrom(ggplot2,geom_text) @@ -24,7 +25,9 @@ importFrom(ggplot2,guides) importFrom(ggplot2,layer) importFrom(ggplot2,scale_fill_manual) importFrom(ggplot2,scale_x_continuous) +importFrom(ggplot2,scale_x_discrete) importFrom(ggplot2,scale_y_continuous) +importFrom(ggplot2,scale_y_discrete) importFrom(ggplot2,theme_void) importFrom(grid,gpar) importFrom(grid,grobTree) diff --git a/R/geom_venn.R b/R/geom_venn.R index 4b5b512..4865e08 100644 --- a/R/geom_venn.R +++ b/R/geom_venn.R @@ -6,6 +6,8 @@ #' @param data A data.frame or a list as input data. #' @param set_names Set names, use column names if omitted. +#' @param show_set_totals Show total count (c) and/or percentage (p) for each set. +#' Pass a string like "cp" to show both. Any other string like "none" to hide both. #' @param show_stats Show count (c) and/or percentage (p) for each set. #' Pass a string like "cp" to show both. #' @param show_percentage Show percentage for each set. Deprecated, use show_stats instead. @@ -79,6 +81,7 @@ geom_venn <- function(mapping = NULL, data = NULL, stat = "identity", position = "identity", ..., set_names = NULL, + show_set_totals = 'none', show_stats = 'cp', show_percentage = deprecated(), digits = 1, @@ -114,6 +117,7 @@ geom_venn <- function(mapping = NULL, data = NULL, self$geom$set_names <- set_names } self$geom$customize_attributes <- list(show_stats = show_stats, + show_set_totals = show_set_totals, digits = digits, label_sep = label_sep, count_column = count_column, @@ -150,14 +154,25 @@ GeomVenn <- ggproto("GeomVenn", Geom, if ("label" %in% names(data)) { show_elements <- "label" } + show_set_totals <- attr$show_set_totals show_stats <- attr$show_stats digits <- attr$digits label_sep <- attr$label_sep count_column <- attr$count_column show_outside <- attr$show_outside auto_scale <- attr$auto_scale - venn <- prepare_venn_data(data, sets, show_elements, show_stats, digits, - label_sep, count_column, show_outside, auto_scale) + venn <- prepare_venn_data( + data, + sets, + show_elements, + show_set_totals, + show_stats, + digits, + label_sep, + count_column, + show_outside, + auto_scale + ) d0 <- coord_munch(coord, venn$shapes, panel_params) d <- d0 %>% filter(!duplicated(group)) %>% @@ -179,9 +194,16 @@ GeomVenn <- ggproto("GeomVenn", Geom, lwd = d$stroke_size * .pt, lty = d$stroke_linetype))) if (nrow(venn$labels) > 0) { + #browser() + .names <<- self$set_names + .labels <<- venn$labels$text + .new_labs <- character(length = length(.labels)) + for (.lab in seq_along(.labels)) { + .new_labs[[.lab]] <- gsub(paste0('^', names(.names)[[.lab]]), .names[[.lab]], .labels[[.lab]]) + } d1 <- coord_munch(coord, venn$labels, panel_params) gl <- grid::gList(gl, - textGrob(self$set_names, + textGrob(.new_labs, d1$x, d1$y, default.units = "native", hjust = d1$hjust, vjust = d1$vjust, gp = gpar(col = attr$set_name_color, diff --git a/R/ggvenn.R b/R/ggvenn.R index 68be063..3a6be25 100644 --- a/R/ggvenn.R +++ b/R/ggvenn.R @@ -4,9 +4,11 @@ #' @param data A data.frame or a list as input data. #' @param columns A character vector use as index to select columns/elements. #' @param show_elements Show set elements instead of count/percentage. +#' @param show_set_totals Show total count (c) and/or percentage (p) for each set. +#' Pass a string like "cp" to show both. Any other string like "none" to hide both. #' @param show_stats Show count (c) and/or percentage (p) for each set. -#' Pass a string like "cp" to show both. #' @param show_percentage Show percentage for each set. Deprecated, use show_stats instead. +#' Pass a string like "cp" to show both. Any other string like "none" to hide both. #' @param digits The desired number of digits after the decimal point #' @param fill_color Filling colors in circles. #' @param fill_alpha Transparency for filling circles. @@ -61,11 +63,12 @@ #' ggvenn(d, show_elements = "value") #' @seealso geom_venn #' @importFrom dplyr tibble tribble as_tibble %>% select_if mutate count filter inner_join -#' @importFrom ggplot2 ggplot aes geom_polygon geom_segment geom_text scale_x_continuous scale_y_continuous scale_fill_manual guides coord_fixed theme_void layer +#' @importFrom ggplot2 ggplot aes geom_polygon geom_segment geom_text scale_x_continuous scale_y_continuous scale_fill_manual guides coord_fixed theme_void layer scale_x_discrete scale_y_discrete expansion #' @importFrom stats na.omit #' @export ggvenn <- function(data, columns = NULL, show_elements = FALSE, + show_set_totals = 'none', show_stats = 'cp', show_percentage = lifecycle::deprecated(), digits = 1, @@ -91,9 +94,9 @@ ggvenn <- function(data, columns = NULL, show_stats <- if (show_percentage) "cp" else "c" } - venn <- prepare_venn_data(data, columns, show_elements, show_stats, digits, - label_sep, count_column, show_outside, auto_scale, - comma_sep=comma_sep) + venn <- prepare_venn_data(data, columns, show_elements, show_set_totals, + show_stats, digits, label_sep, count_column, + show_outside, auto_scale, comma_sep=comma_sep) g <- venn$shapes %>% mutate(group = LETTERS[group]) %>% ggplot() + @@ -392,7 +395,9 @@ gen_label_pos_4 <- function() { } prepare_venn_data <- function(data, columns = NULL, - show_elements = FALSE, show_stats = "cp", digits = 1, + show_elements = FALSE, + show_set_totals = '', + show_stats = "cp", digits = 1, label_sep = ",", count_column = NULL, show_outside = c("auto", "none", "always"), auto_scale = FALSE, comma_sep=FALSE) { @@ -484,7 +489,11 @@ prepare_venn_data <- function(data, columns = NULL, } else { stop("logical columns in data.frame `data` or vector `columns` should be length between 2 and 4") } - df_label <- df_label %>% mutate(text = columns) + df_label <- df_label %>% + mutate( + text = calculate_totals(data, columns, show_set_totals, digits, comma_sep), + hjust = 0.5 + ) show_elements <- !identical(show_elements, FALSE) } else if (is.list(data)) { if (is.null(columns)) { @@ -536,7 +545,11 @@ prepare_venn_data <- function(data, columns = NULL, } else { stop("list `data` or vector `column` should be length between 2 and 4") } - df_label <- df_label %>% mutate(text = columns) + df_label <- df_label %>% + mutate( + text = calculate_totals(data, columns, show_set_totals, digits, comma_sep), + hjust = 0.5 + ) } else { stop("`data` should be either a list or a data.frame") } @@ -580,3 +593,47 @@ prepare_venn_data <- function(data, columns = NULL, } list(shapes = df_shape, texts = df_text, labels = df_label, segs = df_seg) } + + +# Function to calculate set totals +calculate_totals <- function(data, columns, show_set_totals, digits, comma_sep) { + + #browser() + + counts <- sapply(columns, function(column) { + if (inherits(data, 'data.frame')){ + sum(data[[column]]) + } else { + length(data[[column]]) + } + }) + names(counts) <- columns + + total <- if (inherits(data, 'data.frame')) { + nrow(data) + } else { + nrow(list_to_data_frame(data)) + } + percentages <- counts / total * 100 + + if (comma_sep) { + fmt_count <- "%s" + counts <- sapply(counts, function (.x) sprintf(fmt_count, scales::label_comma()(.x))) + } + + if (show_set_totals == 'c') { + return( + paste0(names(counts), "\n", counts) + ) + } else if (show_set_totals == 'p') { + return( + paste0(names(counts), "\n", round(percentages, digits), "%") + ) + } else if (show_set_totals == 'cp') { + return( + paste0(names(counts), "\n", counts, " (", round(percentages, digits), "%)") + ) + } + + columns +} diff --git a/README.md b/README.md index 2f48e0e..e87e4e2 100644 --- a/README.md +++ b/README.md @@ -2,6 +2,11 @@ Venn Diagram by ggplot2, with really easy-to-use API. This package is inspired by [Venny](http://bioinfogp.cnb.csic.es/tools/venny/index.html) + +[![R-CMD-check](https://github.com/yanlinlin82/ggvenn/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/yanlinlin82/ggvenn/actions/workflows/R-CMD-check.yaml) + + + ## Screenshots diff --git a/man/geom_venn.Rd b/man/geom_venn.Rd index 9979b32..91280d2 100644 --- a/man/geom_venn.Rd +++ b/man/geom_venn.Rd @@ -11,6 +11,7 @@ geom_venn( position = "identity", ..., set_names = NULL, + show_set_totals = "none", show_stats = "cp", show_percentage = deprecated(), digits = 1, @@ -40,18 +41,52 @@ mapping.} \item{stat}{The statistical transformation to use on the data for this layer, as a string.} -\item{position}{Position adjustment, either as a string naming the adjustment -(e.g. \code{"jitter"} to use \code{position_jitter}), or the result of a call to a -position adjustment function. Use the latter if you need to change the -settings of the adjustment.} - -\item{...}{Other arguments passed on to \code{\link[ggplot2:layer]{layer()}}. These are -often aesthetics, used to set an aesthetic to a fixed value, like -\code{colour = "red"} or \code{size = 3}. They may also be parameters -to the paired geom/stat.} +\item{position}{A position adjustment to use on the data for this layer. This +can be used in various ways, including to prevent overplotting and +improving the display. The \code{position} argument accepts the following: +\itemize{ +\item The result of calling a position function, such as \code{position_jitter()}. +This method allows for passing extra arguments to the position. +\item A string naming the position adjustment. To give the position as a +string, strip the function name of the \code{position_} prefix. For example, +to use \code{position_jitter()}, give the position as \code{"jitter"}. +\item For more information and other ways to specify the position, see the +\link[ggplot2:layer_positions]{layer position} documentation. +}} + +\item{...}{Other arguments passed on to \code{\link[ggplot2:layer]{layer()}}'s \code{params} argument. These +arguments broadly fall into one of 4 categories below. Notably, further +arguments to the \code{position} argument, or aesthetics that are required +can \emph{not} be passed through \code{...}. Unknown arguments that are not part +of the 4 categories below are ignored. +\itemize{ +\item Static aesthetics that are not mapped to a scale, but are at a fixed +value and apply to the layer as a whole. For example, \code{colour = "red"} +or \code{linewidth = 3}. The geom's documentation has an \strong{Aesthetics} +section that lists the available options. The 'required' aesthetics +cannot be passed on to the \code{params}. Please note that while passing +unmapped aesthetics as vectors is technically possible, the order and +required length is not guaranteed to be parallel to the input data. +\item When constructing a layer using +a \verb{stat_*()} function, the \code{...} argument can be used to pass on +parameters to the \code{geom} part of the layer. An example of this is +\code{stat_density(geom = "area", outline.type = "both")}. The geom's +documentation lists which parameters it can accept. +\item Inversely, when constructing a layer using a +\verb{geom_*()} function, the \code{...} argument can be used to pass on parameters +to the \code{stat} part of the layer. An example of this is +\code{geom_area(stat = "density", adjust = 0.5)}. The stat's documentation +lists which parameters it can accept. +\item The \code{key_glyph} argument of \code{\link[ggplot2:layer]{layer()}} may also be passed on through +\code{...}. This can be one of the functions described as +\link[ggplot2:draw_key]{key glyphs}, to change the display of the layer in the legend. +}} \item{set_names}{Set names, use column names if omitted.} +\item{show_set_totals}{Show total count (c) and/or percentage (p) for each set. +Pass a string like "cp" to show both. Any other string like "none" to hide both.} + \item{show_stats}{Show count (c) and/or percentage (p) for each set. Pass a string like "cp" to show both.} diff --git a/man/ggvenn.Rd b/man/ggvenn.Rd index 96757b5..110220c 100644 --- a/man/ggvenn.Rd +++ b/man/ggvenn.Rd @@ -8,6 +8,7 @@ ggvenn( data, columns = NULL, show_elements = FALSE, + show_set_totals = "none", show_stats = "cp", show_percentage = lifecycle::deprecated(), digits = 1, @@ -25,7 +26,8 @@ ggvenn( count_column = NULL, show_outside = c("auto", "none", "always"), auto_scale = FALSE, - comma_sep = FALSE + comma_sep = FALSE, + padding = 0.2 ) } \arguments{ @@ -35,10 +37,13 @@ ggvenn( \item{show_elements}{Show set elements instead of count/percentage.} -\item{show_stats}{Show count (c) and/or percentage (p) for each set. -Pass a string like "cp" to show both.} +\item{show_set_totals}{Show total count (c) and/or percentage (p) for each set. +Pass a string like "cp" to show both. Any other string like "none" to hide both.} -\item{show_percentage}{Show percentage for each set. Deprecated, use show_stats instead.} +\item{show_stats}{Show count (c) and/or percentage (p) for each set.} + +\item{show_percentage}{Show percentage for each set. Deprecated, use show_stats instead. +Pass a string like "cp" to show both. Any other string like "none" to hide both.} \item{digits}{The desired number of digits after the decimal point} @@ -71,6 +76,8 @@ Pass a string like "cp" to show both.} \item{auto_scale}{Allow automatically resizing circles according to element counts.} \item{comma_sep}{Whether to use comma as separator for displaying numbers.} + +\item{padding}{Padding for the plot. Change this to allow longer labels to be displayed.} } \value{ The ggplot object to print or save to file. diff --git a/tests/testthat/_snaps/ggvenn.md b/tests/testthat/_snaps/ggvenn.md index 4c92876..9408635 100644 --- a/tests/testthat/_snaps/ggvenn.md +++ b/tests/testthat/_snaps/ggvenn.md @@ -2492,10 +2492,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 diff --git a/tests/testthat/_snaps/set-totals.md b/tests/testthat/_snaps/set-totals.md new file mode 100644 index 0000000..0625ce3 --- /dev/null +++ b/tests/testthat/_snaps/set-totals.md @@ -0,0 +1,5054 @@ +# stats + + Code + ggplot_build(ggvenn(a, show_percentage = FALSE, show_elements = FALSE, + text_size = 6))$data + Warning + The `show_percentage` argument of `ggvenn()` is deprecated as of ggvenn 0.1.11. + i Please use the `show_stats` argument instead. + Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. + i Please use `linewidth` instead. + Output + [[1]] + fill x y group PANEL colour linewidth linetype + 1 blue -0.169669914 0.030330086 1 1 NA 0.5 1 + 2 blue -0.238008866 0.096533585 1 1 NA 0.5 1 + 3 blue -0.308208092 0.160335055 1 1 NA 0.5 1 + 4 blue -0.379984927 0.221477588 1 1 NA 0.5 1 + 5 blue -0.453050349 0.279714985 1 1 NA 0.5 1 + 6 blue -0.527110151 0.334812746 1 1 NA 0.5 1 + 7 blue -0.601866118 0.386549010 1 1 NA 0.5 1 + 8 blue -0.677017237 0.434715454 1 1 NA 0.5 1 + 9 blue -0.752260898 0.479118129 1 1 NA 0.5 1 + 10 blue -0.827294124 0.519578241 1 1 NA 0.5 1 + 11 blue -0.901814781 0.555932871 1 1 NA 0.5 1 + 12 blue -0.975522801 0.588035632 1 1 NA 0.5 1 + 13 blue -1.048121388 0.615757257 1 1 NA 0.5 1 + 14 blue -1.119318213 0.638986122 1 1 NA 0.5 1 + 15 blue -1.188826592 0.657628692 1 1 NA 0.5 1 + 16 blue -1.256366639 0.671609900 1 1 NA 0.5 1 + 17 blue -1.321666393 0.680873448 1 1 NA 0.5 1 + 18 blue -1.384462916 0.685382036 1 1 NA 0.5 1 + 19 blue -1.444503349 0.685117508 1 1 NA 0.5 1 + 20 blue -1.501545929 0.680080930 1 1 NA 0.5 1 + 21 blue -1.555360967 0.670292584 1 1 NA 0.5 1 + 22 blue -1.605731768 0.655791882 1 1 NA 0.5 1 + 23 blue -1.652455508 0.636637213 1 1 NA 0.5 1 + 24 blue -1.695344044 0.612905709 1 1 NA 0.5 1 + 25 blue -1.734224682 0.584692925 1 1 NA 0.5 1 + 26 blue -1.768940862 0.552112466 1 1 NA 0.5 1 + 27 blue -1.799352794 0.515295521 1 1 NA 0.5 1 + 28 blue -1.825338021 0.474390340 1 1 NA 0.5 1 + 29 blue -1.846791909 0.429561633 1 1 NA 0.5 1 + 30 blue -1.863628070 0.380989909 1 1 NA 0.5 1 + 31 blue -1.875778712 0.328870750 1 1 NA 0.5 1 + 32 blue -1.883194908 0.273414020 1 1 NA 0.5 1 + 33 blue -1.885846795 0.214843026 1 1 NA 0.5 1 + 34 blue -1.883723696 0.153393611 1 1 NA 0.5 1 + 35 blue -1.876834160 0.089313210 1 1 NA 0.5 1 + 36 blue 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-1.552112466 4 1 black NA 1 solid 1 + 376 -0.334224682 -1.584692925 4 1 black NA 1 solid 1 + 377 -0.295344044 -1.612905709 4 1 black NA 1 solid 1 + 378 -0.252455508 -1.636637213 4 1 black NA 1 solid 1 + 379 -0.205731768 -1.655791882 4 1 black NA 1 solid 1 + 380 -0.155360967 -1.670292584 4 1 black NA 1 solid 1 + 381 -0.101545929 -1.680080930 4 1 black NA 1 solid 1 + 382 -0.044503349 -1.685117508 4 1 black NA 1 solid 1 + 383 0.015537084 -1.685382036 4 1 black NA 1 solid 1 + 384 0.078333607 -1.680873448 4 1 black NA 1 solid 1 + 385 0.143633361 -1.671609900 4 1 black NA 1 solid 1 + 386 0.211173408 -1.657628692 4 1 black NA 1 solid 1 + 387 0.280681787 -1.638986122 4 1 black NA 1 solid 1 + 388 0.351878612 -1.615757257 4 1 black NA 1 solid 1 + 389 0.424477199 -1.588035632 4 1 black NA 1 solid 1 + 390 0.498185219 -1.555932871 4 1 black NA 1 solid 1 + 391 0.572705876 -1.519578241 4 1 black NA 1 solid 1 + 392 0.647739102 -1.479118129 4 1 black NA 1 solid 1 + 393 0.722982763 -1.434715454 4 1 black NA 1 solid 1 + 394 0.798133882 -1.386549010 4 1 black NA 1 solid 1 + 395 0.872889849 -1.334812746 4 1 black NA 1 solid 1 + 396 0.946949651 -1.279714985 4 1 black NA 1 solid 1 + 397 1.020015073 -1.221477588 4 1 black NA 1 solid 1 + 398 1.091791908 -1.160335055 4 1 black NA 1 solid 1 + 399 1.161991134 -1.096533585 4 1 black NA 1 solid 1 + 400 1.230330086 -1.030330086 4 1 black NA 1 solid 1 + + [[3]] + x y label hjust vjust PANEL group colour size angle alpha + 1 -1.5 -1.3 Set 1\n5 (45.5%) 0.5 1 1 -1 black 6 0 NA + 2 -0.8 1.2 Set 2\n4 (36.4%) 0.5 0 1 -1 black 6 0 NA + 3 0.8 1.2 Set 3\n4 (36.4%) 0.5 0 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4\n4 (36.4%) 0.5 1 1 -1 black 6 0 NA + family fontface lineheight + 1 1 1.2 + 2 1 1.2 + 3 1 1.2 + 4 1 1.2 + + [[4]] + x y label hjust vjust PANEL group colour size angle alpha family + 1 -1.5 0.0 1\n(9.1%) 0.5 0.5 1 -1 black 6 0 NA + 2 -0.6 0.7 1\n(9.1%) 0.5 0.5 1 -1 black 6 0 NA + 3 0.6 0.7 2\n(18.2%) 0.5 0.5 1 -1 black 6 0 NA + 4 1.5 0.0 3\n(27.3%) 0.5 0.5 1 -1 black 6 0 NA + 5 -0.9 0.3 1\n(9.1%) 0.5 0.5 1 -1 black 6 0 NA + 6 0.0 0.4 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 7 0.9 0.3 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 8 -0.8 -0.9 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 9 0.8 -0.9 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 10 0.0 -1.4 1\n(9.1%) 0.5 0.5 1 -1 black 6 0 NA + 11 -0.5 -0.2 2\n(18.2%) 0.5 0.5 1 -1 black 6 0 NA + 12 0.5 -0.2 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 13 -0.3 -1.1 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 14 0.3 -1.1 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + 15 0.0 -0.7 0\n(0.0%) 0.5 0.5 1 -1 black 6 0 NA + fontface lineheight + 1 1 1.2 + 2 1 1.2 + 3 1 1.2 + 4 1 1.2 + 5 1 1.2 + 6 1 1.2 + 7 1 1.2 + 8 1 1.2 + 9 1 1.2 + 10 1 1.2 + 11 1 1.2 + 12 1 1.2 + 13 1 1.2 + 14 1 1.2 + 15 1 1.2 + + diff --git a/tests/testthat/_snaps/stats.md b/tests/testthat/_snaps/stats.md index a39524f..42a78c0 100644 --- a/tests/testthat/_snaps/stats.md +++ b/tests/testthat/_snaps/stats.md @@ -1215,10 +1215,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -2479,10 +2479,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -3743,10 +3743,1274 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA + fontface lineheight + 1 1 1.2 + 2 1 1.2 + 3 1 1.2 + 4 1 1.2 + + [[4]] + x y label hjust vjust PANEL group colour size angle alpha family + 1 -1.5 0.0 1\n(9.1%) 0.5 0.5 1 -1 black 4 0 NA + 2 -0.6 0.7 1\n(9.1%) 0.5 0.5 1 -1 black 4 0 NA + 3 0.6 0.7 2\n(18.2%) 0.5 0.5 1 -1 black 4 0 NA + 4 1.5 0.0 3\n(27.3%) 0.5 0.5 1 -1 black 4 0 NA + 5 -0.9 0.3 1\n(9.1%) 0.5 0.5 1 -1 black 4 0 NA + 6 0.0 0.4 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 7 0.9 0.3 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 8 -0.8 -0.9 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 9 0.8 -0.9 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 10 0.0 -1.4 1\n(9.1%) 0.5 0.5 1 -1 black 4 0 NA + 11 -0.5 -0.2 2\n(18.2%) 0.5 0.5 1 -1 black 4 0 NA + 12 0.5 -0.2 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 13 -0.3 -1.1 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 14 0.3 -1.1 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + 15 0.0 -0.7 0\n(0.0%) 0.5 0.5 1 -1 black 4 0 NA + fontface lineheight + 1 1 1.2 + 2 1 1.2 + 3 1 1.2 + 4 1 1.2 + 5 1 1.2 + 6 1 1.2 + 7 1 1.2 + 8 1 1.2 + 9 1 1.2 + 10 1 1.2 + 11 1 1.2 + 12 1 1.2 + 13 1 1.2 + 14 1 1.2 + 15 1 1.2 + + +--- + + Code + ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = "c"))$data + Warning + The `show_percentage` argument of `ggvenn()` is deprecated as of ggvenn 0.1.11. + i Please use the `show_stats` argument instead. + Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. + i Please use `linewidth` instead. + Output + [[1]] + fill x y group PANEL colour linewidth linetype + 1 blue -0.169669914 0.030330086 1 1 NA 0.5 1 + 2 blue -0.238008866 0.096533585 1 1 NA 0.5 1 + 3 blue -0.308208092 0.160335055 1 1 NA 0.5 1 + 4 blue -0.379984927 0.221477588 1 1 NA 0.5 1 + 5 blue -0.453050349 0.279714985 1 1 NA 0.5 1 + 6 blue -0.527110151 0.334812746 1 1 NA 0.5 1 + 7 blue -0.601866118 0.386549010 1 1 NA 0.5 1 + 8 blue -0.677017237 0.434715454 1 1 NA 0.5 1 + 9 blue -0.752260898 0.479118129 1 1 NA 0.5 1 + 10 blue -0.827294124 0.519578241 1 1 NA 0.5 1 + 11 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0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -5007,10 +6271,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -5055,7 +6319,7 @@ --- Code - ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = "p"))$data + ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = "cp"))$data Warning The `show_percentage` argument of `ggvenn()` is deprecated as of ggvenn 0.1.11. i Please use the `show_stats` argument instead. @@ -6271,10 +7535,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -7533,10 +8797,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -8795,10 +10059,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 @@ -10057,10 +11321,10 @@ [[3]] x y label hjust vjust PANEL group colour size angle alpha family - 1 -1.5 -1.3 Set 1 1.0 1 1 -1 black 6 0 NA + 1 -1.5 -1.3 Set 1 0.5 1 1 -1 black 6 0 NA 2 -0.8 1.2 Set 2 0.5 0 1 -1 black 6 0 NA 3 0.8 1.2 Set 3 0.5 0 1 -1 black 6 0 NA - 4 1.5 -1.3 Set 4 0.0 1 1 -1 black 6 0 NA + 4 1.5 -1.3 Set 4 0.5 1 1 -1 black 6 0 NA fontface lineheight 1 1 1.2 2 1 1.2 diff --git a/tests/testthat/test-geom_venn.R b/tests/testthat/test-geom_venn.R index d68b685..cda2cc6 100644 --- a/tests/testthat/test-geom_venn.R +++ b/tests/testthat/test-geom_venn.R @@ -1,6 +1,6 @@ test_that("geom_venn", { - d <- tibble(value = c(1, 2, 3, 5, 6, 7, 8, 9), + d <- tibble(value = c(1, 2, 3, 4, 5, 6, 7, 8), `Set 1` = c(TRUE, FALSE, TRUE, TRUE, FALSE, TRUE, FALSE, TRUE), `Set 2` = c(TRUE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE, TRUE), `Set 3` = c(TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, TRUE, TRUE), diff --git a/tests/testthat/test-set-totals.R b/tests/testthat/test-set-totals.R new file mode 100644 index 0000000..eaba515 --- /dev/null +++ b/tests/testthat/test-set-totals.R @@ -0,0 +1,52 @@ +test_that("stats", { + a <- list( + `Set 1` = c(1, 3, 5, 7, 9), + `Set 2` = c(1, 5, 9, 13), + `Set 3` = c(1, 2, 8, 9), + `Set 4` = c(6, 7, 10, 12) + ) + + expect_snapshot( + ggplot_build( + ggvenn( + a, + show_percentage = FALSE, + show_elements = FALSE, + text_size = 6 + ) + )$data + ) + + expect_snapshot( + ggplot_build( + ggvenn( + a, + show_set_totals = "c", + show_elements = FALSE, + text_size = 6 + ) + )$data + ) + + expect_snapshot( + ggplot_build( + ggvenn( + a, + show_set_totals = "p", + show_elements = FALSE, + text_size = 6 + ) + )$data + ) + + expect_snapshot( + ggplot_build( + ggvenn( + a, + show_set_totals = "cp", + show_elements = FALSE, + text_size = 6 + ) + )$data + ) +}) diff --git a/tests/testthat/test-stats.R b/tests/testthat/test-stats.R index 6da06e3..5f9000c 100644 --- a/tests/testthat/test-stats.R +++ b/tests/testthat/test-stats.R @@ -9,8 +9,9 @@ test_that("stats", { expect_snapshot(ggplot_build(ggvenn(a))$data) expect_snapshot(ggplot_build(ggvenn(a, show_percentage = FALSE))$data) expect_snapshot(ggplot_build(ggvenn(a, show_percentage = TRUE))$data) + expect_snapshot(ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = 'c'))$data) expect_snapshot(ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = 'p'))$data) - expect_snapshot(ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = 'p'))$data) + expect_snapshot(ggplot_build(ggvenn(a, show_percentage = TRUE, show_stats = 'cp'))$data) expect_snapshot(ggplot_build(ggvenn(a, show_stats = 'c'))$data) expect_snapshot(ggplot_build(ggvenn(a, show_stats = 'p'))$data) expect_snapshot(ggplot_build(ggvenn(a, show_stats = 'cp'))$data)