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Changelog

Source: NEWS.md

douconca 1.2.4

  • Update of function ipf2N2 for informative pre-processing of abundance data. The row and column marginals are set equal to Hill N2 or, the column marginals to N2(1-N2/N), the effective number of informative species. For max_iter=0 only the species marginal is adapted to N2 or N2(1-N2/N) without further adjustment to the abundance table. This is useful if the function did not converge or gives a warning indicating very unequal site totals.

douconca 1.2.3

CRAN release: 2025-05-09

  • Forward selection of traits and of environmental variables added (function FS()).
  • Function ipf2N2 for informative pre-processing of abundance data. The row and column marginals are set equal to Hill N2 or, the column marginals to 2N2(N-N2)/N, the effective number of informative species. informative species
  • More efficiency for large data sets by addition of a new cca function (cca0).
  • An anova method for cca0 to enable residual predictor permutation.
  • Improved stability for ‘exceptional’ data sets.
  • The response can now be supplied as left-hand side of the environmental formula, instead of by the response argument.

douconca 1.2.2

CRAN release: 2024-12-02

  • New coef.dcca() and fitted.dcca() functions with predict.dcca() adapted. The function coef() can give fourth-corner correlations and regression coefficients.
  • Patch release with extended test files and associated small corrections, for example, SDS (standard deviation of predictors) was in v1.2.1 a constant factor too large with the default of the argument divideBySiteTotals (the regression weights and t-values were correct).

douconca 1.2.1

CRAN release: 2024-09-25

  • Patch release addressing check errors on several CRAN build machines.

douconca 1.2.0

CRAN release: 2024-09-13

  • Intial CRAN release

douconca 1.1.6

  • An issue with collinear predictors in v1.1.5 has been resolved.

douconca 1.1.5

  • The package can now do general dc-CA, instead of the vegan-based version with equal site weights only. For users of the previous version, the function dc_CA_vegan has been replaced by the more general function dc_CA. The default gives the same analysis. By specifying the argument divideBySiteTotals = FALSE, obtain the original dc-CA analysis with unequal site weights.
  • The plot_dcCA function is now a method: plot.
  • General dc-CA required weighted redundancy analysis. For this, a new function wrda has been added, with methods for print, scores and anova.
  • A predict function has been added.
  • A dc-CA can be computed from community-weighted means (CWMs) with trait and environment data with species and site weights. See the new function fCWM_SNC. This is of interest, for example, to make a dc-CA analysis reproducible when the abundance data cannot be made public, and it may also allow to perform dcCA with intra-species trait variation. The user needs to be able to compute meaningful CWMs in this case and supply trait data that reflect the (species-weighted) inter-trait covariance.
  • Several functions are updated. In particular, there are corrections to the anova function.

douconca 1.1.2

  • The scores.dccav function is corrected concerning intra-set correlations for traits and environmental variables.
  • The plotting functions are updated to avoid ggplot2 warnings on color and size.
  • The fitted straight lines in the plots use the implicit weights (they did already, but the help said they did not).