funrar - 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.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt over 2 years ago

funrar - funrar 1.2.1

• Add Authors' ORCID and all contributors;
• funrar paper is now included in DESCRIPTION, README.md and has a proper CITATIONq 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).

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt about 7 years ago

funrar - funrar 1.2.0

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.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt almost 8 years ago

funrar - funrar 1.1.1

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.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt almost 8 years ago

funrar - 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.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt almost 8 years ago

funrar -

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),
• Conditionnally use microbenchmark following CRAN advices.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt almost 8 years ago

funrar -

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.

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt over 8 years ago

funrar -

• Changed article status to accepted
• Added tidy aliases function to stack_to_matrix() (tidy_to_matrix()) and matrix_to_stack() (matrix_to_tidy())
• Corrected conversion x_to_matrix() and matrix_to_x() functions to work with sparse matrices

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt over 8 years ago

funrar - v1.0.0 on CRAN

First release of the package on CRAN

Biosphere - Biodiversity Analysis and Metrics - R
Published by Rekyt almost 9 years ago