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ChangeLog.md

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Change-log v0.1.5

domino_plot function

  • Adopted cleaner naming conventions for parameters:
    • feature_col → x
    • celltype_col → y
    • contrast_col → contrast
    • logfc_col → log_fc
    • pval_col → p_val
  • Added deprecation warnings for old parameter names that will be removed in a future version >v1.5
  • Updated function documentation to reflect new parameter names

dice_plot function

  • Adopted cleaner naming conventions for parameters:
    • cat_a → x
    • cat_b → y
    • cat_c → z
    • cat_c_colors → z_colors
    • base_width_per_cat_a → base_width_per_x
    • base_height_per_cat_b → base_height_per_y
  • Added deprecation warnings for old parameter names that will be removed in a future version >v1.5
  • Updated function documentation to reflect new parameter names
  • Improved handling of factors in both functions
  • cluster_by_row argument defaults to TRUE, set to FALSE to use factor levels for ordering
  • cluster_by_column argument defaults to TRUE, set to FALSE to use factor levels for ordering
  • show_legend defaults to TRUE, controls whether to show or omit the legend plot
  • cat_b_order argument removed, will throw an error in a future version

Change-log v0.1.4

  • handling factors in diceplot
  • cluster_by_row argument defaults to TRUE, false it will use the factor levels for ordering
  • cluster_by_column argument defaults to TRUE, false it will use the factor levels for ordering
  • show_legend defaults to TRUE, show or omit the legend plot s
  • cat_b_order argument removed, will throw an error in a future version

Change-log v0.1.3

  • add citation
  • cat_c_colors allow to pass a colorbrewer palette name for chosing the color palette as an additional option
  • group_colors allow to pass a colorbrewer palette name for chosing the color palette as an additional option
  • cat_b_order allow to pass an explicit row order

Change-log v0.1.2

  • rename files from dice_plot/ domino_plot to diceplot/dominoplot
  • adapted dice_plot arguments:
    • group variable is not needed anymore for running the code
    • group_color is set automatically using RColorBrewer
    • dice_plot is now returning the ggplot object and removed the option to save the plot
      • plot_path removed
      • format removed
      • output_string removed
    • max_dot_size and min_dot_size as additional arguments to modify your plot.
    • legend_width and legend_height as additional arguments to modify your plots legend.
    • base_width_per_cat_a and base_height_per_cat_b as additional arguments to modify your plots legend.
    • reverse_ordering reverse the clustering order if wanted