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Changelog

Source: NEWS.md

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)

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

Version 0.10.0

CRAN release: 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

Version 0.9.3

CRAN release: 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.

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

Version 0.9.0

CRAN release: 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

Version 0.8.2

CRAN release: 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

Version 0.8.1-rc7 (Release Candidate)

CRAN release: 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

Version 0.8.1-rc6 (Release Candidate)

CRAN release: 2025-10-16

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

Version 0.8.1

CRAN release: 2025-10-16

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

Version 0.8.1-rc5 (Release Candidate)

CRAN release: 2025-10-16

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

Version 0.8.1-rc4 (Release Candidate)

CRAN release: 2025-10-16

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

Version 0.8.0

CRAN release: 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
  • chore(VelocityPlot): handle ggplot2 v4 compatibility for arrow lengths