`NEWS.md`

- Added a new vignette named “other_functions” to document recently added functions. You can access it through
`vignette("other_functions", package = "funrar")`

- fix use of
`tidytext`

for upcoming version (#42, thanks @juliasilge !) - remove dependency on dplyr to avoid breaking due to next dplyr release

- Implement
`distinctiveness_global()`

to compute occurrence based distinctiveness at the global/regional level using only a distance matrix

- Fix tests that used
`data.frame()`

now with explicit`stringAsFactors`

values for compatibility with R 4.0.0 - Add missing tests on bad inputs for some functions

- Add
`_tidy()`

aliases for each`_stack()`

function for easier reading (fix #29). -
`distinctiveness_stack()`

returns`NA`

as distinctiveness values for absent species (#30). - New definition of functional distinctiveness based on range see
`distinctiveness_range()`

. - New definition of functional distinctiveness based on range with different formula see
`distinctiveness_alt()`

.

- Warning when distinctiveness equals
`NaN`

in`distinctiveness_stack()`

(#30).

- Fix a bug in the test of
`distinctiveness_dimensions()`

that generated errors on cran server.

- Add Authors’ ORCID and all contributors;
- funrar paper is now included in DESCRIPTION, README.md and has a proper CITATION file;
- Fix typos in documentation;
- Transformation from tidy data.frame to sparse matrix is now possible using
`stack_to_matrix(x, sparse = TRUE)`

(#25); - Add a warning message when using only continuous traits with function
`comput_dist_matrix()`

, as it defaults to Gower’s distance (#27); - Specification in help that functional distances need to be scaled between 0 and 1 prior to distinctiveness computation (#26).

- Split
`rarity_dimensions()`

in two more explicit functions:`uniqueness_dimensions()`

and`distinctiveness_dimensions()`

split corresponding tests; - Add internal function to compute multiple functional distance matrix using a single trait table (
`combination_trait_dist()`

); -
`distinctiveness()`

now fully conserve the dimnames of the provided site-species matrix.

- Add tests for
`rarity_dimensions()`

; -
`rarity_dimensions()`

now comprises both Uniqueness and Distinctiveness; - Remove packages
`StatMatch`

,`microbenchmark`

&`reshape2`

from suggested packages.

- Made
`make_absolute()`

defunct because it was based on false assumptions and would not give back matrices of relative abundances; - Improved examples of
`make_relative()`

,`uniqueness()`

,`distinctiveness()`

to compute across single communities or regional pools; - Add
`rarity_dimensions()`

function to measure the different facets of rarity according to the trait; - Add
`center`

and`scale`

arguments in`compute_dist_matrix()`

to scale traits before computing distance, these arguments are sensitive to the specific distance metric used; - Use markdown with
`roxygen2`

to generates documentation.

- Corrected bug so that dense matrices can be transformed to stack data frame using
`matrix_to_stack()`

(#19), - Updated citation for Violle et al. 2017,
- Use package
`goodpractice`

to enforce better code style, - Add
`is_relative()`

function to test if matrix contains relative abundances,`scarcity()`

and`distinctiveness()`

now warns if it is not the case (#21), - Conditional use
`microbenchmark`

following CRAN advice.

- Added functions to convert absolute abundance matrix to relative abundance matrix,
`make_relative()`

and reverse function`make_absolute()`

, - Added a
`NEWS.md`

file to track changes to the package.

Developed by Matthias Grenié, Pierre Denelle, Caroline Tucker.

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