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Changelog

Version 0.3-0, 2023-08-21

  • edma_scale function contributed by Kevin M. Middleton (PR #11).

Version 0.2-1, 2021-12-07

  • read_xyz don’t change landmark names to be syntactically valid.

Version 0.2-0, 2021-11-04

  • Separate edma_fdm_report and edma_gdm_report functions.
  • Renaming Tobs_* functions to global_* to avoid confusion with T-test.
  • Updated documentation.

Version 0.1-11, 2021-08-17

  • Added edma_report() to reproduce WinEDMA output.
  • Fixed CI calculation: ref_denom argument should not flip numerator and denominator.
  • 2D and 3D plot revised to color edges and label landmarks.

Version 0.1-10, 2021-07-19

  • Bug fix: FDM methods had issues with B=0.
  • Added landmark names to 2D plots, use labels=TRUE.
  • 3D plots now preserve XYZ aspect ration of 1.
  • signif_only=FALSE allows plotting the top/bottom percentage of linear distances (edges) in 2D/3D plots.

Version 0.1-8, 2020-12-19

  • Added new function gpa_fit to estimate mean form based on GPA.

Version 0.1-7, 2020-11-27

  • Renaming T_* functions to Tobs_* to avoid confusion with T-test.
  • Observed statistic not included into the null distribution for global testing.
  • Added interactive plotly graphics to vignettes.

Version 0.1-6, 2020-11-20

  • Shape difference matrix (SDM) calculation added: edma_sdm.
  • edma_sdm can be set to assume same size, use TLS, or a particular edge.
  • CI calculation (local FDM, GM, GDM, SDM testing) calculations use 2-sample bootstrap.
  • Global FDM, GM, GDM testing (T-test) uses the mixed or the reference bootstrap, global Z-test for FDM is based on 2-sample bootstrap.

Version 0.1-4, 2020-08-23

  • .edma_fit_np is more preformant (original implementation retained as .edma_fit_np_old for comparison); it also exposes mean/variance for distances for future uses.
  • edma_simulate_data is also much faster now.
  • Nonparametric EDMA fid and FDM analysis can use multiple cores.
  • Added write.xyz function to write EDMA data into xyz format.
  • Added 4 data sets for growth difference analysis.

Version 0.1-3, 2020-07-05

  • Small fixes to parametric test helper functions.
  • Miscellaneous function to print/visualize pattern matrices.
  • Exposed combine_data and combine_data4 functions.
  • Clustering method now can be changed by the user.
  • as.edma_data method added to turn a 3D array (a common morphometrics data format) to EDMA data objects.
  • Added edma_colors and plot_edma_colors for manipulating color palettes set via getOption("edma_options").
  • Extensive updates to the docs and vignettes.

Version 0.1-2, 2020-04-30

  • Parametric estimation tested.

Version 0.1-1, 2020-02-16

  • Global test p-values updated.
  • Package website made with {pkgdown}.

Version 0.1-0, 2019-12-27

  • EDMA package command line interface finalized.