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Changelog

Source: NEWS.md

biometryassist 1.3.3

CRAN release: 2025-09-15

Bug Fixes

  • Fixing test issues identified by CRAN after ggplot2 4.0.0 release

biometryassist 1.3.2

CRAN release: 2025-09-11

Bug Fixes

  • Updates to tests and histograms for compatibility with upcoming ggplot2 release.
  • Fixed a bug where standard errors that were too small would produce plots with missing upper or lower confidence limits due to rounding the SE to zero. (#119)
  • Fixed a bug that made rotated axis labels overlap the plot area (#113)

biometryassist 1.3.1

CRAN release: 2025-07-04

Bug Fixes

  • Update to ensure compatibility with upcoming ggplot2 release (#111)

biometryassist 1.3.0

CRAN release: 2025-06-11

Major changes

  • Switched to using S3 methods for resplot() to enable easier expansion to different models in future. (#100)
  • Introduced a new function export_design_to_excel(). An excel file can now be created from a design dataframe, instead of just a graphical plot. (#74)
  • Introduced a new comparison interval type in multiple_comparisons(). The new option int.type = 'tukey' will now create comparison intervals using Tukey’s distribution rather than a t-distribution for a regular confidence interval. This has been a point of confusion when intervals don’t overlap but share letters. (#66)

Minor changes

  • Model inputs are now checked for potential transformations that haven’t been supplied in multiple_comparisons(). (#83)
  • Enabled a verbose option for the quiet parameter in install_asreml() to give more detailed output when required. (#81)
  • Added ability to group multiple resplots and variograms into a single grid via a onepage argument. (#73)
  • Buffer plots are now implemented within the design data frame, rather than just the plotting logic (#68)

Bug Fixes

  • Fixed a bug introduced in v1.2.2 where arguments weren’t passed through properly to asreml. (#98)
  • Fixed a bug which broke the messages about deprecated parameters in resplot. (#97)
  • Fixed a long-standing bug where logl_test would work if random terms were given in resid. (#7)

biometryassist 1.2.2

CRAN release: 2025-04-23

Major changes

  • Switched to using S3 methods to get predictions in multiple_comparisons() to enable easier expansion to different models in future. (#92)

Minor changes

  • Added ability to produce column plots from multiple_comparisons() (#90)
  • Add option in multiple_comparisons() to disable letter comparisons (#85)
  • Enable custom colour palettes for design plots (#84)

Bug Fixes

  • Fixed CRAN warnings due to changes in the sommer package (#89)
  • Fixed errors in shapiro.test() within resplot() with too many data points (#87)
  • Fixed a bug where heat_map() didn’t work properly with factor columns (#86)
  • Split-plot design dataframe doesn’t have the required columns (#82)

biometryassist 1.2.1

CRAN release: 2024-06-05

Bug Fixes

  • The new summary_graph() function was accidentally left out of the CRAN submission.

biometryassist 1.2.0

CRAN release: 2024-05-31

Major changes

Minor changes

  • Implemented the ability to plot designs with buffer plots. (#68)
  • Changed install_asreml() to check if there is a later version before downloading.
  • Enabled non-standard evaluation input of column names in autoplot.design().

biometryassist 1.1.3

CRAN release: 2023-07-19

Bug fixes

  • Better checking of column names in data provided to multiple_comparisons() to prevent breaking. (#53)
  • Updated install_asreml() to work with ARM chip macOS devices. (#54)
  • Wrote a vignette with instructions for installing ASReml-R. (#55)
  • Fixed variogram to enable it to work with dsum models (i.e. MET models). (#61)

biometryassist 1.1.2

CRAN release: 2022-11-25

Bug fixes

  • Fixed a bug introduced due to a change in names by predictmeans(). (#50)
  • Added a check for missing ar1() component in variogram(). (#49)
  • Added an error check for terms provided in the wrong order to multiple_comparisons() via classify. (#48)
  • Checked if model needs the present argument passed to predict.asreml(). (#41)

biometryassist 1.1.1

CRAN release: 2022-10-27

Minor changes

  • multiple_comparisons() now accepts power transformations and automatically back-transforms. It gains a new argument power to provide the transformation power applied in the model to undo. This enables more general Box-Cox transformations. (#36)
  • multiple_comparisons() no longer produces an error when the trans argument is supplied and offset is not. It now produces a warning and sets offset to 0 when not provided. (#37)
  • Added an option to turn off the start up message and version check. Add options(biometryassist.check = FALSE) to your .Rprofile file to disable. Partially fixes #6.
  • Enabled new colour-blind friendly palettes (#39)

Bug fixes

  • Updated the required version of rlang (>=1.0.0)
  • Fixed a bug that didn’t allow labels and the x axis to be rotated independently for autoplot.mct() (#35)
  • Fixed an issue where treatment columns were not determined correctly in multiple_comparisons() (#33)
  • Fixed a problem with variograms displaying grey values where NAs have been produced. (#24 and #25)
  • Fixed some warnings that would be introduced with the forthcoming version of ggplot2 (#42)

biometryassist 1.1.0

CRAN release: 2022-04-14

Major changes

  • multiple_comparisons() no longer requires calls to predict.asreml() to be passed into the function, as the predicted values are now calculated internally. Additional arguments can be passed to predict.asreml() via the ... argument. (#27)

Minor changes

  • The order argument of multiple_comparisons() has been deprecated in favour of a new argument descending. This takes logical (TRUE or FALSE) values only, so default is no longer possible as it was producing incorrect results. (#8)
  • resplt() has been deprecated in favour of resplot() and will be removed in a future version (#20).
  • Warnings about lack of convergence are no longer output in logl_test(). (#17)

Bug fixes

biometryassist 1.0.0

CRAN release: 2022-01-28

Minor changes

Previous versions

For changes prior to biometryassist 1.0.0 see the BiometryTraining package at https://biometryhub.github.io/BiometryTraining/news/index.html.