ggpubr Files

New features

• New functions stat_anova_test(), stat_kruskal_test(), stat_welch_anova_test(), stat_friedman_test() and geom_pwc() added. These are flexible functions to add p-values onto ggplot with more options. The function geom_pwc() is for adding pairwise comparisons p-values to a ggplot; supportted statistical methods include "wilcox_test", "t_test", "sign_test", "dunn_test", "emmeans_test", "tukey_hsd" and "games_howell_test".
• New functions to convert character vector coordinates into NPC (normalized parent coordinates) and data coordinates: as_npc(), npc_to_data_coordinates() and get_coord().
• Global options:
  • New function ggpubr_options() to display allowed global options in ggpubr
  • New available package options: ggpubr.parse_aes. logical indicating whether to parse or not the aesthetics variables names. Default is TRUE. For example, if you want ggpubr to handle non-standard column names, like A-A, without parsing, then set this option to FALSE using options(ggpubr.parse_aes = FALSE).

Minor changes

• Minimum rstatix version needed is set to 0.7.1
• Minimum ggplot2 version needed is set to 3.4.0
• stat_conf_ellipse: ensure stat returns a data.frame for compatibility with ggplot2 v>=3.4.0
• stat_compare_means():
  • Unit tests added
  • Updated to use after_stat(p.signif) as the dot-dot notation (..p.signif..) was deprecated in ggplot2 3.4.0 (#509).
• ggdensity() and gghistogram(): dot-dot notation (..density.., ..count..) replaced by after_stat(density) and after_stat(count), respectively for compatibility with ggplot2 3.4.0.
• create_aes():
  • Default is now to parse its input, which can be an expression (#348). If you want ggpubr to handle non-standard column names (#229), like A-A, without parsing, then set this option to FALSE using options(ggpubr.parse_aes = FALSE).
  • Supports space in column names like "Dimension 1"
  • Unittest added
• Arguments (digits and table.font.size) added to ggsummarystats() for changing the summary table decimal place and text size (#341).
• In stat_pvalue_manual() the argument hide.ns can be either a logical value (TRUE or FALSE) or a character value ("p" or "p.adj" for filtering out non significant by p-value or adjusted p-values).
• Now, the x-axis tick label names correctly align with the corresponding ticks when the rotation angle of the texts is set to 90. This is automatically achieved by setting internally vjust = 0.5 (#301).
• Capital NS. is no longer displayed by stat_compare_means() (#171)
• Unit tests added forggshistogram() to make sure that it works when:
  • using after_stat(),
  • using after_stat() with trailing space inside parentheses.
• Unit tests added forggscatter() to make sure that:
  • it works when there is spaces in variable names
  • it can handle non-standard column names when ggpubr.parse_aes global option is set to FALSE (#229)