Changelog

Source: NEWS.md

rdiversity 2.3.02026-07-15

  • Fixed repartition() for non-phylogenetic metacommunities: it previously passed a bare similarity matrix to metacommunity(), which has not accepted matrices for a while
  • Added tests for gen2dist(), inddiv(), repartition() and the high-level diversity-measure wrappers
  • Corrected the gen2dist() documentation
  • Removed the vendored binary.R library; the taxonomic and genetic bit handling is now implemented directly in base R
  • Breaking: as.binary() (and its associated S3 methods) is no longer exported, as it was only ever an internal implementation detail
  • Dropped the reshape2 dependency (superseded upstream); the melt() calls in inddiv()/subdiv()/metadiv() are replaced by a small internal base-R helper
  • Migrated continuous integration from Travis CI and AppVeyor to GitHub Actions
  • Added lint, pr-commands and R-hub v2 (rhub) workflows
  • Formatted the codebase with styler and added a .lintr configuration so the package passes lintr::lint_package() cleanly
  • Added a cran-comments.md template and tidied the repository (ignore rules, build artefacts).

rdiversity 2.2.02022-05-06

  • Added internal support for binary (base-2) number objects, used when encoding taxonomic and genetic data as similarities (taxid(), taxvec(), taxmask()).
  • Fixed CRAN check notes and corrected the package URL and maintainer field.

rdiversity 2.1.3

  • Add dependency on markdown to fix win-builder warning

rdiversity 2.1.2

  • Add vignette
  • Remove deprecated functionality - metacommunity() no longer allows matrices as a similarity argument
  • Increase unit tests coverage

rdiversity 2.02020-05-20

  • Standardised metacommunity input
  • New functions added to calculate genetic similarity matrices

rdiversity 1.2.12018-06-19

  • Fix problems that occur when user doesn’t have row names in the partition object
  • Update citation

rdiversity 1.22018-06-12

  • Allow partition types to be input in any order, or with missing or additional types
  • Tests added for new functionality

rdiversity 1.1

  • Removed redundant argument chainsaw(depth)
  • Renamed chainsaw(interval) to chainsaw(depth)
  • Minor edits to documentation

rdiversity 1.02017-06-27

  • Initial submission to CRAN