Changes in version 0.11.0                        

  - feat(palette): add tableau color palettes to palette list
  - feat(dimplot): add support for 3D plots using plotly for 3-component
    dimplots
  - feat(UpsetPlot): preserve group order in compmatrix (lower table)
  - feat(UpsetPlot): add combmatrix_gap parameter for row spacing in
    combination matrix
  - feat: implement calculate_plot_dimensions() across all plot
    functions
  - feat: enhance heatmap dimension calculations for row and column
    labels based on visibility settings
  - feat: add padding parameter to Heatmap for customizable heatmap
    spacing
  - fix(UpsetPlot): nudge label position in geom_text_repel for better
    visibility
  - fix(UpsetPlot): fix ytrans not working
  - fix(Heatmap): handle empty string cases for row and column name
    parameters in process_heatmap_data
  - fix(DimPlot): hide legend for fill and color scales for marks in
    dimension plot
  - fix(DimPlot): ensure all levels are included in the legend by
    keeping empty levels for stat plots
  - fix(DimPlot): disable legend for line width scale in dimension plot
    when graph is given
  - fix(Box/Violin/BeeswarmPlot): update variance check to allow more
    unique values for comparison
  - chore(VennDiagram): change default palette to 'Blues'
  - chore(UpsetPlot): change default palette to 'Blues'
  - chore(UpsetPlot): change segment colour of labels to NA (hiding
    segment lines)
  - ci: update ggrepel package version to 0.9.5 in dependencies (0.9.6
    requires R 4.5)

                       Changes in version 0.10.1                        

  - BREAKING(Box/ViolinPlot): update sort_x parameter to accept
    expressions for x-axis ordering
  - feat(RadarPlot): add groups parameter to filter and order groups in
    the plot
  - feat(Heatmap): add rows_orderby and columns_orderby to order rows
    and columns (if set, cluster_rows and cluster_columns will default
    to FALSE)
  - fix: update BarPlotSingle to conditionally use geom_text for flipped
    plots and adjust height/width calculations
  - fix(Box/ViolinPlo): hide legends for color, size, and alpha scales
    for highlighted points
  - fix(BeeswarmPlot):fix highlight not working
  - fix(JitterPlot): fix position_jitterdodge() requires at least one
    aesthetic to dodge by for ggplot2 v3
  - fix(BarPlot): correct conditional assignment for fill_by parameter
  - fix(BarPlot): fix when x has multiple columns
  - fix(Heatmap): ensure ordered factors are converted to character for
    proper processing
  - fix(TrendPlot): complete missing combinations for area layer to
    prevent interpolation issues
  - fix(AreaPlot): complete missing combinations for x, group_by, and
    facet_by to prevent interpolation issues
  - fix(RadarPlot): clarify groups parameter documentation and its
    implications on keep_empty
  - fix: ensure unique values in for loops for grouping in bar, pie,
    ring, and trend plots
  - fix(heatmap): ensure unique values in processed data for heatmap

                 Changes in version 0.10.0 (2026-02-06)                 

New Features

  - Add keep_na and keep_empty parameters to control handling of NA and
    empty values across multiple plot functions: AreaPlot, BarPlot,
    BoxPlot, ChordPlot, DensityHistoPlot, DimPlot, DotPlot, Heatmap,
    JitterPlot, LinePlot, PieChart, RadarPlot, SpiderPlot, RingPlot,
    SankeyPlot, TrendPlot, and VelocityPlot
  - Add continuous color mapping support for BarPlot and SplitBarPlot
    (#28)
  - Allow palcolor parameter to allow replacing colors by palette

Bug Fixes

  - fix: update color handling in various plot functions to ensure
    consistent NA value representation
  - fix: enhance palette_this function to support custom colors and NA
    handling
  - fix: add na.value parameter to scale functions for consistent NA
    color handling across LinePlot and BarPlotSingle
  - fix: update check_keep_na and check_keep_empty functions to return
    named lists
  - fix: update fill_by condition in BarPlotAtomic to handle missing
    values correctly
  - fix: update breaks and limits parameters in scale_fill_manual for
    BarPlotSingle

Documentation

  - docs: enhance documentation for keep_na and keep_empty parameters
    across all affected functions
  - docs: enhance documentation for color palette customization and NA
    handling in plots

                 Changes in version 0.9.3 (2026-01-09)                  

New Features

  - Add beeswarm plot support to BoxPlot and ViolinPlot (#26)

Bug Fixes

  - fix(RidgePlot): drop unused levels from split_by variable
  - fix(DimPlot): handle NA values in ordering for high-top and low-top
    options
  - fix(docs): update link to all available color palettes in basic
    design vignette
  - fix(docs): update link format for all available palettes in
    palette_this documentation
  - fix(docs): remove outdated link to all available palettes in
    documentation

Documentation

  - docs: add BeeswarmPlot to the list of available plots in README

Full Changelog: 0.9.1...0.9.3

Note: Version 0.9.2 was skipped due to CRAN submission failure.

                        Changes in version 0.9.1                        

New Features

  - feat: add beeswarm plot support to BoxPlot and ViolinPlot (#26)

Bug Fixes

  - fix(RidgePlot): drop unused levels from split_by variable
  - fix(DimPlot): handle NA values in ordering for high-top and low-top
    options (pwwang/scplotter#29)
  - fix(docs): update link to all available color palettes in basic
    design vignette

Documentation

  - docs: add BeeswarmPlot to the list of available plots in README

Contributors

  - @Copilot made their first contribution in #26

Full Changelog: 0.9.0...0.9.1

                 Changes in version 0.9.0 (2025-12-11)                  

Bug Fixes

  - fix(box/violinplot): comment out error message for group_by
    comparisons
  - fix(boxviolinplot): skip processing for data frames with less than 2
    rows
  - fix(network): update ggplot2 version check for link_type_by support
    (#21)
  - fix(velocityplot): update ggplot2 version check for arrow length
    handling (#19, #22)
  - chore(heatmap): add warning for unknown arguments in HeatmapAtomic
    function
  - fix(boxviolinplot): make sig_labelsize relative to theme base_size

Documentation

  - docs(ROCCurve): update example to include cutoffs_at parameter for
    clarity

Full Changelog: 0.8.2...0.9.0

                 Changes in version 0.8.2 (2025-11-10)                  

Bug Fixes

  - fix(prepare_fgsea_result): correct NES NA handling and add print
    statement
  - fix(GSEASummaryPlot): remove debug print statement

Full Changelog: 0.8.1...0.8.2

                 Changes in version 0.8.1 (2025-10-16)                  

New Features

  - feat(jitterplot): add order_by parameter for data labeling

Documentation

  - chore(jitterplot): use simpler order_by parameter in examples

Full Changelog: 0.8.1-rc6...0.8.1-rc7

Bug Fixes

  - fix(heatmap): preserve the column/row order if given as factor in
    long form
  - fix(volcanoplot): use parameter linewidth for cutoffs instead of
    deprecated size
  - fix(heatmap): optimize data grouping and processing for dot_size
  - fix(heatmap): fix default dot size data for flipped plot

Documentation

  - docs(heatmap): change example of making row/column annotation
    thinner to thicker
  - docs(volcanoplot): add missing documentation for label_by argument

Full Changelog: 0.8.1-rc5...0.8.1-rc6

New Features

  - feat(box/violin): add support for paired observations in Box/Violin
    plots
  - feat(RadarPlot/SpiderPlot): add background color and transparency
    options and fix radial grid lines across y=0
  - feat(boxviolinplot): add support for paired tests
  - feat(heatmap): allow setting parameters for name annotations and set
    default width/height to 2.5mm
  - feat(heatmap): enhance dot size functionality to support indexes and
    dim names
  - feat(jitterplot): add order_by parameter for data labeling

Bug Fixes

  - fix(dotplot): update color handling in DotPlotAtomic function due to
    ggplot2 v4
  - fix(barplot): correct label positioning and scaling in
    BarPlotGrouped
  - fix(heatmap): prevent double printing in pkgdown with ggplot2 >= 4
  - fix(boxviolinplot): enhance pairwise comparison handling when tests
    fail
  - fix(heatmap): update viewport handling for pie and boxviolin layers
  - fix(heatmap): prevent double printing in pkgdown with return_grob
    flag
  - fix(heatmap): preserve the column/row order if given as factor in
    long form
  - fix(heatmap): ensure grouping retains all levels
  - fix(heatmap): optimize data grouping and processing for dot_size
  - fix(heatmap): fix default dot size data for flipped plot

Documentation

  - docs(heatmap): change example of making row/column annotation
    thinner to thicker
  - docs(volcanoplot): add missing documentation for label_by argument
  - chore(jitterplot): use simpler order_by parameter in examples

Full Changelog: 0.8.0...0.8.1

New Features

  - feat(heatmap): allow setting parameters for name annotations and set
    default width/height to 2.5mm
  - feat(heatmap): enhance dot size functionality to support indexes and
    dim names

Bug Fixes

  - fix(heatmap): update viewport handling for pie and boxviolin layers
  - fix(heatmap): prevent double printing in pkgdown with return_grob
    flag

Full Changelog: 0.8.1-rc4...0.8.1-rc5

New Features

  - feat(box/violin): add support for paired observations in Box/Violin
    plots
  - feat(RadarPlot/SpiderPlot): add background color and transparency
    options and fix radial grid lines across y=0

Bug Fixes

  - fix(dotplot): update color handling in DotPlotAtomic function due to
    ggplot2 v4
  - fix(barplot): correct label positioning and scaling in
    BarPlotGrouped
  - fix(heatmap): prevent double printing in pkgdown with ggplot2 >= 4
  - fix(boxviolinplot): enhance pairwise comparison handling when tests
    fail

Full Changelog: 0.8.0...0.8.1-rc4

                 Changes in version 0.8.0 (2025-09-23)                  

Major Announcement

🎆 plotthis is now compatible with ggplot2 v4!

New Features

  - feat: add JitterPlot

Bug Fixes

  - fix(gsea): handle zero normalization in running enrichment score
    calculation
  - fix(CorPlot): handle when x has zero standard variation (#23)
  - fix(Heatmap): update return_grob logic to adopt ggplot2 v4 (#20)
  - fix(BarPlot): adjust label_nudge parameter for bar plot functions

Infrastructure

  - chore: introduce renv for package dependency management
  - chore(dotplot): update examples to avoid testing during
    documentation build
  - chore(Network): handle ggplot2 v4 compatibility for link_type_by
      - Still need thomasp85/ggraph#394 to be fixed to get full support
  - chore(VelocityPlot): handle ggplot2 v4 compatibility for arrow
    lengths
      - Still need tidyverse/ggplot2#6594 to be fixed to get full
        support