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Changelog

Source: NEWS.md

goeveg 0.7.10

CRAN release: 2026-01-08

  • syntable(): Now uses by default non-zero cover values for mean/median cover calculation. Added argument nonzero_cover

goeveg 0.7.9

CRAN release: 2025-09-03

  • syntable(): Fixes in fidelity calculation when using the u-value; added Fishers’s exact test to exclude non-significant fidelity
  • syntable(): Added options for standardization of sample group size
  • hcr_resampling(): Added checks for groups limits
  • Harmonized terminology between synsort() and syntable(): Both refer to groups instead of clusters now.

goeveg 0.7.8.

  • New function hcr_resampling() to perform heterogeneity-constrained random (HCR) resampling (Lengyel, Chytrý & Tichý, 2011)
  • syntable(): Added new options of fidelity calculation (u-value and Ochiai index); improved speed using more vectorised computations
  • syntable(): Added option to calculate synoptic tables from long-format vegetation data; implemented with data.table for faster performance on large databases.
  • synsort(): Added method = "totalfreq" (order species by overall frequency) and method = "manual" (order by a user-supplied vector).
  • synsort(): The species–sample matrix is no longer returned by default (for faster performance on large datasets); set samples = TRUE to include it.
  • synsort(): Added cluster_order to select and order cluster columns; columns not listed are omitted.

goeveg 0.7.6

CRAN release: 2025-06-13

  • per2cov(): Fixed a mistake leading to wrong cover value assignments in specific cases

goeveg 0.7.5

CRAN release: 2024-05-17

  • syntable(): Added argument to define number of decimal places in results
  • clean_matrix(): Empty cell values are transformed to 0; fixed to work correctly with non-numeric values in data tables

goeveg 0.7.4

CRAN release: 2024-02-26

  • cov2per and per2cov: Added option to transform with individual scales per sample
  • trans_matrix(): Added option rmchar to remove the first character of the original column names

goeveg 0.7.3

  • New function clean_matrix() to remove species without occurrences (frequency = 0) and samples without species from a species matrix in one simple step
  • New function trans_matrix() to transpose a species matrix, while preserving correct species and sample names.
  • Simplified function merge_taxa() with increased performance
    • Added option backtransform to decide whether cover-abundance values should be kept as percentage cover or back-transformed into original cover-abundance values
    • Option drop_zero renamed to clean_matrix and set on FALSE by default
  • cov2per: Fixed an error when providing a data frame with only one column as community data
  • syntable: Fixed an unnecessary warning message occurring at cover value transformation

goeveg 0.7.2

CRAN release: 2024-02-06

  • Cover-abundance scales:
    • Added scale “niwap” from Lower Saxony species survey programmes (Schacherer 2001)
    • Added x-value to presence/absence scale
  • merge_taxa():
    • returns names of merged taxa only once (not for each relevé)
    • added option drop_zero to decide whether species without occurrences or empty samples should be removed or kept
    • fixed an error when providing individual scales for each sample
  • syntable() and merge_taxa() automatically repair imported tables with empty character values (““)

goeveg 0.7.1

CRAN release: 2023-12-13

  • syntable() can now handle factorial variables for defining clusters, e.g. to summarize relevés according to pre-defined categories and is more flexible regarding the format of the community matrix
  • Terminology was harmonized between different functions

goeveg 0.7.0

goeveg 0.6.5

CRAN release: 2023-06-13

  • Fixed wrong species labeling in racurve() when freq = TRUE

goeveg 0.6.4

CRAN release: 2023-05-16

  • Added functions deg2rad() and rad2deg() for conversion between radians and degrees
  • Updated data table schedenenv

goeveg 0.6.3

goeveg 0.6.2

goeveg 0.6.1

CRAN release: 2023-05-04

  • Explained deviances and p-values are now printed in specresponse(). Full model results are returned in an (invisible) object.
  • Added functionality to select the least abundant (rarest) species in ordiselect()

goeveg 0.6.0

CRAN release: 2023-04-19

  • (Re-)added functions for calculation and sorting of synoptic tables: syntable() and synsort()
  • Comprehensive update for ordiselect(). Now returns exact proportion of selected species. Correction in selection to axis fit limits. Variable fit now only works with factor centroids.
  • Updated help pages

goeveg 0.5.1

CRAN release: 2021-05-10

  • Fixes in references and value tags

goeveg 0.5.0

goeveg 0.4.4

goeveg 0.4.3

goeveg 0.4.2

CRAN release: 2018-11-22

  • Small fixes, fixed package dependencies
  • Spell checking

goeveg 0.4.1

goeveg 0.3.3

CRAN release: 2017-01-25

  • Fixes in documentation

goeveg 0.3.2

goeveg 0.3.1

  • Fixed use of external functions (gam(), rdist())
  • Max. of 3 polynomials in automatic GLM selection of specresponse()

goeveg 0.3.0

CRAN release: 2016-12-14

  • Fixed and renewed function specresponse()/specresponses(): now works also with NMDS, includes zero values and is based on presence/absence data (logistic regression). Instead of cubic smoothing splines the function now uses GLMs/GAMs.

goeveg 0.2.0

CRAN release: 2016-06-21

  • Added functionality to use frequencies in racurve()
  • Added functionality to label species in racurve()
  • New (invisible) output in racurve()
  • Package checked and tested on OS X

goeveg 0.1.7

  • Added functionality for labeling species in racurve()
  • Corrected spelling mistakes

goeveg 0.1.6

CRAN release: 2016-06-14

  • First CRAN release