Changes in version 1.3.2                        

Minor Improvements and Fixes

  - upgraded defunction mutate_ call #7
  - upgraded mutate_at, mutate_if, select_if, etc to use mutate/select
    and across
  - improved warnings and errors by switching to cli

                        Changes in version 1.3.1                        

Minor Improvements and Fixes

  - updated pkgdown site deployment and link urls.

                        Changes in version 1.3.0                        

Major changes

  - Removed plotly dependency due to plotly package retirement from CRAN
    #1
  - Removed interactive plotting functions [plot_heatmap]

New Features

  - Switched new primary repo to github.com/shackett/romic.
    github.com/calico/romic is now read-only
  - added calculate_sample_mahalanobis_distances to calculate the
    Mahalanobis distance of samples from the PC centroid Calico/#85
  - added tomi matrix export with tomic_to_matrix. Calico/#78

Minor Improvements and Fixes

  - Added invert arguments to filter_tomic Calico/#89
  - Allow for transposing axes when creating heatmaps. Calico/#81

                 Changes in version 1.1.3 (2023-09-21)                  

New Features

  - get_tomic_table() makes it easy to pull individual tables out of
    tomic objects. Calico/#55

Minor Improvements and Fixes

  - Bug fix in add_pcs() Calico/#52
  - added option to not display percent variance explained on PCs to
    add_pcs() Calico/#53
  - Added passing of axis and colorbar labels in plot_heatmap()
    Calico/#60
  - Updated romic-package alias so package documentation properly
    displays with ?romic Calico/#63
  - Renamed tests and greatly expanded test coverage. Calico/#64

                 Changes in version 1.1.1 (2023-02-02)                  

New Features

  - plot_bivariate() supports setting size, alpha, and shape. Calico/#48
  - add_pc_loadings() changed to add_pcs() for accuracy. Added fraction
    of variability explained by PCs to add_pcs(). Calico/#32
  - plot_univariate() and plot_bivariate() supporting providing a
    partial string match to a variable name. This helps to generate
    consistent plots even if names might change (like PC1 (10%)).
    Calico/#44
  - tidy_omics and triple_omics can now include a list with unstructured
    data. This puts the convention more in line with an H5AD file. #43.
    This is currently only used to return the fraction of variance
    explained by each PC as part of add_pcs(). Calico/#42

Minor Improvements and Fixes

  - plot_heatmap() rowlabels are suppressed when there are too many
    features rather than setting size to zero. Calico/#45
  - plot_heatmap() supports ordered objects. Calico/#37
  -  coerce_to_classes() added support for glue objects. Calico/#35
  - Added additional checks to retain the class of primary keys and
    tests of coversions. Calico/#33