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Merge branch 'NEWS'
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jarioksa committed Mar 21, 2024
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predictors is necessary with strongly varying weights. See
discussion in
[issue #542](https://github.com/vegandevs/vegan/issues/542).
The new scheme only concern CCA which is a weighted method, and RDA
The new scheme only concerns CCA which is a weighted method, and RDA
and dbRDA permutation is unchanged.

* Constrained ordination objects (`cca`, `rda`, `dbrda`) fitted
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* Some methods accept rectangular raw data input as alternative to
distances, but did not pass all arguments to distance
functions. These arguments in `vegdist` could be `binary = TRUE` or
`pseudocount` with Aitchison distance. See issue
`pseudocount` with Aitchison distance. This concerns `dbrda`,
`capscale` and `bioenv`. See issue
[#631](https://github.com/vegandevs/vegan/issues/631)

* `simper` gave arbitrary *p*-values for species that did not occur in
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* `Rsquare.adj` gave arbitrary *p*-values for over-fitted models with
no residual variation. Now returns `NA` when _R_<sup>2</sup> cannot
be adjusted. Automatic model building could proceed for such cases,
be adjusted. Automatic model building could proceed to such cases,
and this was fixed in `ordiR2step` which returns _R_<sup>2</sup> = 0
for these cases. The constrained ordination methods issue a warning
if the model has no residual component. See issue
for overfitted cases. The constrained ordination methods issue a
warning if the model has no residual component. See issue
[#610](https://github.com/vegandevs/vegan/issues/610)


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