Changelog

Source: NEWS.md

mSigPlot 2.0.0

• Remove all deprecated functionality

mSigPlot 1.0.12

• More cleanup for consistency
• Added peak labels to all bar-plot like plots

mSigPlot 1.0.11

• Removed show_extra_top_bar parameter from plot_ID89() and plot_ID89_pdf()
• Removed associated blocks3 (extra “Del”/“Ins” tier) code from plot_ID89()
• plot_89() retains show_extra_top_bar for backward compatibility but ignores it

mSigPlot 1.0.10

• Added plot_ID83_pdf() and plot_ID89_pdf() calling the new-style plot functions
• Removed legacy plot_83_pdf() and plot_89_pdf()

mSigPlot 1.0.9

• refactor the “legacy” plots (e.g. plot_89)
• More updates to documentation

mSigPlot 1.0.8

• Updated error handling and clarified documentation regarding error handling.

mSigPlot 1.0.7

• First cut at rationalizing function names and arguments. Functions like plot_83, plot_89 now superseded by plot_ID83, plot_ID89, etc. Old functions with old args lists kept for backward compatibility.

mSigPlot 1.0.6

• plot_89: automatically adjust setyaxis upward when it is less than 1.1 times the highest bar, preventing bars from being clipped by the y-axis limit.

mSigPlot 1.0.5

• Added runnable @examples to all exported functions for CRAN compliance.
• Added .claude-trace and tests/visual to .Rbuildignore.
• Removed all references to ICAMS package from source and tests.
• R CMD check passes with 0 errors, 0 warnings, 0 notes.

mSigPlot 1.0.3

• Fixed y-axis tick labels showing integers instead of decimals for proportion/signature catalogs. Affected all bar-chart plot functions.

mSigPlot 1.0.2

• All bar-chart plot functions now support negative values (e.g. for plotting signature differences). Affected functions: plot_SBS96, plot_SBS192, plot_SBS12, plot_SBS288, plot_DBS78, plot_DBS144, plot_83, plot_89, plot_476, plot_ID166.

mSigPlot 1.0.1

• Adjusted ggrepel arrow heads in plot_476 etc.
• More testing infrastructure

mSigPlot 1.0.0

• Initial release.
• Plot functions for 10 catalog types: SBS96, SBS192, SBS12, SBS1536, DBS78, DBS136, DBS144, ID83, ID89, ID166, ID476.
• Auto-dispatch via plot_guess() and plot_guess_pdf().
• Multi-sample PDF export with 5 plots per page.
• Row name validation and automatic reordering.