funrar 1.5.0
NEW FEATURES
- Added a new vignette named “other_functions” to document recently
added functions. You can access it through
vignette("other_functions", package = "funrar")
INTERNAL CHANGES
- Fix uses of the
Matrix
package for their next
version
- Reorganized documentation to please
goodpractice
USER-FACING CHANGES
- Remove warnings regarding relative abundances for the
distinctiveness_*()
functions as they can perfectly work
with absolute abundances giving the same results.
- Fix typo in name of sparse matrices vignette.
funrar 1.4.1
BUG FIX
- fix use of
tidytext
for upcoming version (#42, thanks
@juliasilge
!)
- remove dependency on dplyr to avoid breaking due to next dplyr
release
funrar 1.4.0
NEW FEATURES
- Implement
distinctiveness_global()
to compute
occurrence based distinctiveness at the global/regional level using only
a distance matrix
BUG FIX
- 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
funrar 1.3.1
BUG FIX
- Test explicitly for matrix type in
rarity_dimensions()
for compatibility with R 4.0.0
funrar 1.3.0
NEW FEATURES
- 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()
.
BUG FIX
- Warning when distinctiveness equals
NaN
in
distinctiveness_stack()
(#30).
funrar 1.2.2
- Fix a bug in the test of
distinctiveness_dimensions()
that generated errors on cran server.
funrar 1.2.1
- 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).
funrar 1.2.0
- 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.
funrar 1.1.1
- Add tests for
rarity_dimensions()
;
rarity_dimensions()
now comprises both Uniqueness and
Distinctiveness;
- Remove packages
StatMatch
, microbenchmark
& reshape2
from suggested packages.
funrar 1.1.0
- 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.
funrar 1.0.3
- 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.
funrar 1.0.2
- 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.