R Observatory: Metrics for phenesse version 0.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

phenesse

0.1.3Package record

Estimate Phenological Metrics using Presence-Only Data

0packages depend

3.4Kdownloads / year

77.5%test coverage

13/13flavors OK

Overview

About

Maintained by Michael BelitzCRAN page ↗GitHub ↗Issues ↗

Generates Weibull-parameterized estimates of phenology for any percentile of a distribution using the framework established in Cooke (1979) doi:10.1093/biomet/66.2.367. Extensive testing against other estimators suggest the weib_percentile() function is especially useful in generating more accurate and less biased estimates of onset and offset (Belitz et al. 2020) doi:10.1111/2041-210X.13448. Non-parametric bootstrapping can be used to generate confidence intervals around those estimates, although this is computationally expensive. Additionally, this package offers an easy way to perform non-parametric bootstrapping to generate confidence intervals for quantile estimates, mean estimates, or any statistical function of interest.

Changes in 0.1.3

changed DOI to recommended format in DESCRIPTION
changed authors to recommend format in DESCRIPTION and CITATION

From NEWS.md in the release

Install

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

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("mbelitz/phenesse")

Development version from mbelitz/phenesse. Installs pak first if it is not already available.

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-phenesse

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-phenesse

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-phenesse

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: 4.4 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
NOTE12 OK, 1 NOTE2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.3

READMEYes · 126 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 0.1.3Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 6
Examples that run: 60%3 run in a plain check · 2 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 80%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 17%

Vignettes (1)

phenesse vignette

How these are measured

Downloads

3.4K

CRAN downloads in the past year

Rank #19,179 · ~9/day · ~284/mo

Releases R versions

Daily download trend is not available in this view yet.

26830 days

68590 days

3.4K1 year

Compare downloads with other packages →

Also on86 r2u1 autocran

How downloads are counted

Repository

mbelitz/phenesse ↗Account: mbelitz

7Stars

4Forks

0Open issues

0Open PRs

6Releases

173Commits

3Commit identities

173 commits · Last activity 2025-06-11 · +16.7% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 4
Median days to close, 50 most recently updated closed PRs: 1

Stars over time

2026-07-14 · 62026-10-15 · 7

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/mbelitz/phenesse on 2026-10-21.

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Installing phenesse adds 2 packages (1 with compiled code, 3.1 MB of source tarballs). Heaviest: fitdistrplus 2.4 MB, rlang 766 KB.

Depends (1)

R >= 3.5

Imports (3)

bootfitdistrplusstats

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

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 (3)

Michael Belitz

Author, Maintainer since 0.1.0 (2019)

Caitlin Campbell

Contributor

Daijiang Li

Contributor · added in 0.1.2

Listed in earlier versions (1)

Daijinag Li

no longer listed · 0.1.1

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.1.3Latest
record
2025-06-10 · current release · diff ↗
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
0.1.2
record
2020-07-29 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.1.1
record
2020-03-28 · diff ↗ ·
added 1 export
estimate_ci
0.1.0
record
2019-12-22
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-12-22
Total releases: 4 / 7 yrs
License: CC0
Minimum R: ≥ 3.5
Bundled data: 5.0 KB / 1 file
Download size: 23 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("phenesse")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1111/2041-210x.13448.

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 phenesse version 0.1.3 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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