R Observatory: Metrics for Select version 1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

Select

1.6Package record

Determines Species Probabilities Based on Functional Traits

0packages depend

3.9Kdownloads / year

66.9%test coverage

13/13flavors OK

Overview

About

Maintained by Daniel LaughlinCRAN page ↗

The objective of these functions is to derive a species assemblage that satisfies a functional trait profile. Restoring resilient ecosystems requires a flexible framework for selecting assemblages that are based on the functional traits of species. However, current trait-based models have been limited to algorithms that can only select species by optimising specific trait values, and could not elegantly accommodate the common desire among restoration ecologists to produce functionally diverse assemblages. We have solved this problem by applying a non-linear optimisation algorithm that optimises Rao Q, a closed-form functional trait diversity index that incorporates species abundances, subject to other linear constraints. This framework generalises previous models that only optimised the entropy of the community, and can optimise both functional diversity and entropy simultaneously. This package can also be used to generate experimental assemblages to test the effects of community-level traits on community dynamics and ecosystem function. The method is based on theory discussed in Laughlin (2014, Ecology Letters) and Laughlin et al. (2018, Methods in Ecology and Evolution).

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("Select", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-select

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-Select

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-Select

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 1.7 min · r-oldrel-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-04-10
ERROR13 OK, 1 ERROR2026-04-09
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.6

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 5
Examples that run: 100%2 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 20%

Vignettes (1)

Vignette for using the selectSpecies( ) function HTML

How these are measured

Downloads

3.9K

CRAN downloads in the past year

Rank #6,986 · ~11/day · ~327/mo

Releases R versions

Daily download trend is not available in this view yet.

48230 days

1.2K90 days

3.9K1 year

Compare downloads with other packages →

Also on86 r2u3 autocran

How downloads are counted

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Installing Select adds 21 packages (13 with compiled code, 16 MB of source tarballs). Heaviest: sp 4.3 MB, ade4 3.2 MB, Rcpp 1.8 MB.

Depends (1)

R >= 3.3.0

Imports (7)

Rsolnp latticeExtragrDevicesstatslatticegraphicsade4

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown testthat FD

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Daniel Laughlin

Maintainer, Author · added in 1.3

Loic Chalmandrier

Author · added in 1.3

Maintainer since 1.0 (2017)

Releases (7)

Pick two releases to compare their code metrics.

1.6Latest
record
2026-04-24 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
unarchivedReturned to CRAN
2026-02-23
1.5
record
2026-02-23 · diff ↗
archivedRemoved from CRAN
2025-07-10
issues were not corrected despite reminders
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.4
record
2018-05-11 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.3
record
2018-04-02 · diff ↗
1.2
record
2017-12-16 · diff ↗ ·
removed 2 exports
plotprobs, select

added 2 exports
plotProbs, selectSpecies

Show 4 earlier eventsHide 4 earlier events

R
R 3.4.0 released · 2017-04-21
1.1
record
2017-02-16 · diff ↗
1.0
record
2017-01-26
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2017-01-26
Total releases: 7 / 9 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.3.0
Bundled data: 4.0 KB / 3 files
Download size: 152 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("Select")

Format

Laughlin, D., & Chalmandrier, L. (2026). Select: Determines Species Probabilities Based on Functional Traits (Version 1.6) [Computer software]. https://doi.org/10.32614/CRAN.package.Select

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for Select version 1.6 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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